Analysis 9 - Getting a closer look at the clusters from the clusters from basic some WT only.
Purpose
This analysis is based off of lcmSOM_analysis4_072914.Rmd, where the original dataset was made. The top 25% of co-efficent of variation. I should just make sure I add everything.
Questions
- What type of gene co-expression patterns are found in this data?
- Is there any cluster that is enriched in genes from the curated leaf gene list?
- Are there GO categories that are enriched in the clusters?
- If there are GO categories, what are the genes that are represented?
Caveats
- While the standard deviation of expression of each gene in each tissue were from the reps were calculated, this was not used when creating the self organized map.
Analysis Set-up
Required Libraries
library(VennDiagram)
library(ggplot2)
library(reshape)
library(kohonen)
library(goseq)
library(GO.db)
library(knitr)
source("./clusterFunctions.R")Upload that dataset:
genes25 <- read.csv("../data/analysis4.top25.csv")
genes25 <- genes25[,c(2,9:14)]scale_data <- as.matrix(t(scale(t(genes25[c(2:7)]))))
pca <- prcomp(scale_data, scale=TRUE)
summary(pca) ## Importance of components:
## PC1 PC2 PC3 PC4 PC5 PC6
## Standard deviation 1.325 1.119 1.105 0.970 0.912 2.02e-15
## Proportion of Variance 0.293 0.209 0.204 0.157 0.138 0.00e+00
## Cumulative Proportion 0.293 0.501 0.705 0.862 1.000 1.00e+00pca.scores <- data.frame(pca$x)
data.val <- cbind(genes25, scale_data, pca.scores) Visualizing the PCA
p <- ggplot(data.val, aes(PC1, PC2))
p + geom_point()
Self Organizing Map - (6,6), large
#subset only the scaled gene expression values
set.seed(6)
som <- som(data=scale_data, somgrid(6,6,"hexagonal")) # This is where you change the size of the map
summary(som)## som map of size 6x6 with a hexagonal topology.
## Training data included; dimension is 4618 by 6
## Mean distance to the closest unit in the map: 0.6737Look at the SOM results
plot(som, type = "codes")
plot(som, type = "counts")
plot(som, type="dist.neighbours")
som$data <- data.frame(som$data) #changed to dataframe to extract column names easier.
data.val2 <- cbind(data.val,som$unit.classif,som$distances)
#fix to one regex
data.val2$gene <- gsub("^(.*)[.].*", "\\1", data.val2$gene)
data.val2$gene <- gsub("^(.*)[.].*", "\\1", data.val2$gene)Upload the gene expression list.
geneList1 <- read.csv("../../../06diffGeneExp/analysis/indvGenes/yasuCuratedGenes/pnas.1402835111.sd06.csv")
#isolate the genes
genesOfInterest <- geneList1[,c(1,3)]
colnames(genesOfInterest) <- c("gene", "name")
names(genesOfInterest) #check## [1] "gene" "name"#This is a ridiculas around assigning if a gene is a curated gene!
#Figure out more elegent way.
data.val2$curated <- match(data.val2$gene, genesOfInterest$gene)
data.val2$curated <- gsub("[[:digit:]]+", "yes", data.val2$curated)
data.val2$curated[is.na(data.val2$curated)] <- "no"Visualize the major clusters. Here are the leaf curated genes in PC space.
head(data.val2)## gene wtambr wtaother wtbmbr wtbother wtcmbr wtcother
## 1 Solyc00g005060 3.495e-01 0.4027 1.2847 1.388e-17 0.7016 6.511
## 2 Solyc00g005070 1.719e+01 4.5236 12.6456 3.462e+00 4.1808 83.519
## 3 Solyc00g005430 4.008e-02 0.8329 0.4097 1.358e+00 1.4743 0.946
## 4 Solyc00g005840 1.975e+01 14.0743 11.4830 8.351e+01 15.8112 13.882
## 5 Solyc00g005880 1.571e+00 2.1333 2.9694 2.811e+00 1.9558 4.966
## 6 Solyc00g006470 2.456e+03 605.8620 108.0947 3.605e+02 499.4475 409.566
## wtambr wtaother wtbmbr wtbother wtcmbr wtcother PC1 PC2
## 1 -0.4822 -0.46066 -0.1039 -0.62353 -0.3398 2.0100 0.8529 -1.6794
## 2 -0.1196 -0.52622 -0.2656 -0.56030 -0.5372 2.0089 0.8180 -1.8799
## 3 -1.4636 -0.01919 -0.7901 0.93674 1.1493 0.1869 -1.0080 0.8140
## 4 -0.2374 -0.43921 -0.5314 2.03149 -0.3774 -0.4460 -1.3230 0.2193
## 5 -0.9589 -0.49543 0.1936 0.06336 -0.6416 1.8390 0.3961 -1.6693
## 6 2.0022 -0.15634 -0.7372 -0.44270 -0.2805 -0.3854 0.6217 0.1852
## PC3 PC4 PC5 PC6 som$unit.classif som$distances
## 1 -0.7115 -0.10700 0.01075 2.220e-16 8 0.13932
## 2 -0.2741 0.02502 -0.04351 -2.220e-16 7 0.15509
## 3 -1.3876 1.14932 -0.09713 3.331e-16 10 0.32634
## 4 0.7110 1.10255 1.45429 1.610e-15 31 0.09767
## 5 -0.8672 -0.23448 0.90073 1.887e-15 8 0.89742
## 6 2.2867 0.39962 -0.66500 -2.942e-15 30 0.08093
## curated
## 1 no
## 2 no
## 3 no
## 4 no
## 5 no
## 6 nop <- ggplot(data.val2, aes(PC1, PC2, color = curated))
p + geom_point(size=I(2), alpha = 0.6) +
scale_colour_manual(values=c("#cccccc", "#33ff33")) +
theme_bw()
Visualize by Cluster
Read in data used for GO enrichment analysis.
geneLength <- read.csv("../../../07GO_enrichment/requisiteData/normalized_genes_length.csv")
cate <- read.table("../../../07GO_enrichment/requisiteData/melted.GOTable.txt",header=TRUE)Cluster 1
clusterVis(1)## Using gene as id variables
clusterVis_PCA(1)
clusterVis_line(1)## Using gene, curated as id variables
##clusterGO(1)
y <- genesInClust(1, data.val2, annotation)## [1] 125kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g014800 & NA & NA\\
## Solyc00g027120 & NA & NA\\
## Solyc00g036520 & NA & NA\\
## Solyc00g052540 & NA & NA\\
## Solyc00g166690 & NA & NA\\
## \addlinespace
## Solyc00g313030 & NA & NA\\
## Solyc01g010210 & NA & NA\\
## Solyc01g016630 & NA & NA\\
## Solyc01g056770 & NA & NA\\
## Solyc01g057530 & NA & NA\\
## \addlinespace
## Solyc01g058430 & NA & NA\\
## Solyc01g066510 & AT5G49150 & Encodes a transmembrane domain containing protein expressed in sperm cells.\\
## Solyc01g081020 & AT4G37380 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G66520.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABE82964.1); similar to Os07g0113500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058748.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABE88515.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc01g081290 & NA & NA\\
## Solyc01g097380 & AT1G60680 & A member of ARF GAP domain (AGD), A thaliana has 15 members, grouped into four classes. AGD2 belongs to the class 1, together with AGD1, AGD3, and AGD4.\\
## \addlinespace
## Solyc01g097680 & NA & NA\\
## Solyc01g097690 & NA & NA\\
## Solyc01g106670 & NA & NA\\
## Solyc01g107960 & NA & NA\\
## Solyc01g109420 & AT4G36750 & quinone reductase family protein; similar to quinone reductase family protein [Arabidopsis thaliana] (TAIR:AT4G27270.1); similar to quinone reductase 2 [Triticum monococcum] (GB:AAW78582.1); similar to Os01g0784800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044464.1); similar to Os10g0436800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064672.1); contains InterPro domain Flavodoxin/nitric oxide synthase; (InterPro:IPR008254)\\
## \addlinespace
## Solyc01g111480 & NA & NA\\
## Solyc01g111770 & AT4G38500 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G28240.1); similar to Os06g0724300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058611.1); similar to Protein of unknown function DUF616 [Medicago truncatula] (GB:ABE79297.1); contains InterPro domain Protein of unknown function DUF616; (InterPro:IPR006852)\\
## Solyc02g025080 & NA & NA\\
## Solyc02g055330 & NA & NA\\
## Solyc02g063170 & NA & NA\\
## \addlinespace
## Solyc02g065520 & NA & NA\\
## Solyc02g067200 & NA & NA\\
## Solyc02g068840 & NA & NA\\
## Solyc02g069170 & NA & NA\\
## Solyc02g080350 & AT1G77170 & pentatricopeptide (PPR) repeat-containing protein; similar to binding [Arabidopsis thaliana] (TAIR:AT4G21065.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABE81261.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940)\\
## \addlinespace
## Solyc02g081130 & AT4G22140 & DNA binding; similar to bromo-adjacent homology (BAH) domain-containing protein [Arabidopsis thaliana] (TAIR:AT4G04260.1); similar to unknown [Solanum tuberosum] (GB:ABB29929.1); contains InterPro domain Zinc finger, FYVE/PHD-type; (InterPro:IPR011011); contains InterPro domain Zinc finger, PHD-type; (InterPro:IPR001965); contains InterPro domain Bromo adjacent region; (InterPro:IPR001025)\\
## Solyc02g090730 & AT1G14870 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G35525.1); similar to Os02g0579800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047231.1); similar to Uncharacterized Cys-rich domain [Medicago truncatula] (GB:ABE80519.1); similar to Os03g0830500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051787.1); contains InterPro domain Protein of unknown function Cys-rich; (InterPro:IPR006461)\\
## Solyc03g044030 & NA & NA\\
## Solyc03g044360 & NA & NA\\
## Solyc03g053030 & NA & NA\\
## \addlinespace
## Solyc03g062860 & NA & NA\\
## Solyc03g064010 & AT3G57830 & leucine-rich repeat transmembrane protein kinase, putative; similar to leucine-rich repeat family protein [Arabidopsis thaliana] (TAIR:AT2G42290.1); similar to Os08g0506400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062188.1); similar to Leucine Rich Repeat, putative [Medicago truncatula] (GB:ABE91521.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc03g078740 & NA & NA\\
## Solyc03g082420 & AT4G27670 & chloroplast located small heat shock protein.\\
## Solyc03g082770 & NA & NA\\
## \addlinespace
## Solyc03g083740 & NA & NA\\
## Solyc03g093370 & NA & NA\\
## Solyc03g114570 & NA & NA\\
## Solyc03g120950 & NA & NA\\
## Solyc03g123540 & AT1G54050 & 17.4 kDa class III heat shock protein (HSP17.4-CIII); similar to AT-HSP17.6A (Arabidopsis thaliana heat shock protein 17.6A) [Arabidopsis thaliana] (TAIR:AT5G12030.1); similar to small heat stress protein class CIII [Lycopersicon peruvianum] (GB:AAK84869.1); contains InterPro domain HSP20-like chaperone; (InterPro:IPR008978); contains InterPro domain Heat shock protein Hsp20; (InterPro:IPR002068)\\
## \addlinespace
## Solyc04g005770 & AT2G02750 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G13600.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABE77488.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc04g014940 & NA & NA\\
## Solyc04g015310 & NA & NA\\
## Solyc04g039710 & NA & NA\\
## Solyc04g076690 & NA & NA\\
## \addlinespace
## Solyc04g078100 & NA & NA\\
## Solyc04g080170 & AT1G45160 & kinase; similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT3G17850.1); similar to Os03g0711800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051060.1); similar to putative protein kinase [Oryza sativa] (GB:AAK18843.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Globular protein, non-globular alpha/beta subunit; (InterPro:IPR011070); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc05g009970 & NA & NA\\
## Solyc05g010080 & NA & NA\\
## Solyc05g017870 & NA & NA\\
## \addlinespace
## Solyc05g039950 & NA & NA\\
## Solyc05g041600 & NA & NA\\
## Solyc05g050550 & NA & NA\\
## Solyc06g008800 & NA & NA\\
## Solyc06g036290 & AT5G52640 & Arabidopsis thaliana 81 kDA heat shock protein. Sequence analysis revealed that the exons are interrupted by the presence of three introns of 315, 83, and 88 base pairs. 88% similar to HSP81-2 at amino acid level.\\
## \addlinespace
## Solyc06g068700 & AT5G61790 & calnexin 1 (CNX1); Identical to Calnexin homolog 1 precursor (CNX1) [Arabidopsis Thaliana] (GB:P29402); similar to calnexin, putative [Arabidopsis thaliana] (TAIR:AT5G07340.1); similar to calnexin homolog (GB:AAA17742.1); similar to Concanavalin A-like lectin/glucanase [Medicago truncatula] (GB:ABE80216.1); similar to putative papillar cell-specific calnexin [Brassica napus] (GB:AAK84429.1); contains InterPro domain Calreticulin/calnexin, P; (InterPro:IPR009033); contains InterPro domain Concanavalin A-like lectin/glucanase, subgroup; (InterPro:IPR013320); contains InterPro domain Concanavalin A-like lectin/glucanase; (InterPro:IPR008985); contains InterPro domain Calreticulin/calnexin; (InterPro:IPR001580)\\
## Solyc06g071380 & NA & NA\\
## Solyc06g073850 & NA & NA\\
## Solyc06g076420 & NA & NA\\
## Solyc06g076590 & NA & NA\\
## \addlinespace
## Solyc06g076810 & NA & NA\\
## Solyc07g015770 & NA & NA\\
## Solyc07g017550 & NA & NA\\
## Solyc07g017830 & NA & NA\\
## Solyc07g020780 & NA & NA\\
## \addlinespace
## Solyc07g021560 & NA & NA\\
## Solyc07g026760 & NA & NA\\
## Solyc07g032820 & NA & NA\\
## Solyc07g052870 & NA & NA\\
## Solyc07g054790 & NA & NA\\
## \addlinespace
## Solyc07g055170 & NA & NA\\
## Solyc07g063020 & NA & NA\\
## Solyc07g064690 & AT1G29040 & similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD61226.1); similar to Os01g0613300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043561.1)\\
## Solyc07g065060 & NA & NA\\
## Solyc07g065720 & NA & NA\\
## \addlinespace
## Solyc07g066500 & NA & NA\\
## Solyc08g007420 & AT4G17260 & L-lactate dehydrogenase, putative; similar to PMDH1 (PEROXISOMAL NAD-MALATE DEHYDROGENASE 1), malate dehydrogenase [Arabidopsis thaliana] (TAIR:AT2G22780.1); similar to PMDH2 (PEROXISOMAL NAD-MALATE DEHYDROGENASE 2) [Arabidopsis thaliana] (TAIR:AT5G09660.2); similar to L-lactate dehydrogenase, putative [Brassica oleracea] (GB:ABD65114.1); contains InterPro domain NAD-binding site; (InterPro:IPR000205); contains InterPro domain L-lactate dehydrogenase; (InterPro:IPR011304); contains InterPro domain Lactate/malate dehydrogenase; (InterPro:IPR001236); contains InterPro domain L-lactate/malate dehydrogenase; (InterPro:IPR001557)\\
## Solyc08g014390 & NA & NA\\
## Solyc08g023640 & AT4G21065 & binding; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G01510.1); similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G59720.1); similar to Os07g0150000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058897.1); similar to putative pentatricopeptide repeat-containing protein [Ipomoea trifida] (GB:AAS79604.1); similar to Os03g0795200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051546.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc08g075210 & NA & NA\\
## \addlinespace
## Solyc08g076010 & NA & NA\\
## Solyc08g076330 & NA & NA\\
## Solyc08g078080 & NA & NA\\
## Solyc09g008110 & NA & NA\\
## Solyc09g009140 & AT5G06680 & Encodes protein similar to yeast SCP98. Yeast SCP98 is essential for the microtubule nucleation activity of the gamma-tubulin ring complexes.\\
## \addlinespace
## Solyc09g014620 & NA & NA\\
## Solyc09g042380 & NA & NA\\
## Solyc09g059490 & NA & NA\\
## Solyc09g075170 & AT3G62890 & binding; similar to binding [Arabidopsis thaliana] (TAIR:AT5G40405.1); similar to Os01g0176300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042180.1); similar to Asp/Glu racemase; Tetratricopeptide-like helical [Medicago truncatula] (GB:ABE83029.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc09g082690 & AT3G22840 & Encodes an early light-inducible protein.\\
## \addlinespace
## Solyc10g008880 & AT1G28520 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G42400.1); similar to putative vascular plant one zinc finger protein [Oryza sativa (japonica cultivar-group)] (GB:BAD87186.1); contains InterPro domain Colicin E3, catalytic; (InterPro:IPR009105)\\
## Solyc10g038050 & NA & NA\\
## Solyc10g038070 & NA & NA\\
## Solyc10g039300 & NA & NA\\
## Solyc10g049740 & AT1G05120 & SNF2 domain-containing protein / helicase domain-containing protein / RING finger domain-containing protein; similar to DNA repair protein, putative [Arabidopsis thaliana] (TAIR:AT1G02670.1); similar to putative DNA repair protein rhp16 [Oryza sativa (japonica cultivar-group)] (GB:BAD31171.1); similar to Os07g0511500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059763.1); contains InterPro domain DEAD/DEAH box helicase, N-terminal; (InterPro:IPR011545); contains InterPro domain SNF2-related; (InterPro:IPR000330); contains InterPro domain Helicase, C-terminal; (InterPro:IPR001650); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## \addlinespace
## Solyc10g049960 & NA & NA\\
## Solyc10g054680 & NA & NA\\
## Solyc10g078800 & NA & NA\\
## Solyc10g081570 & NA & NA\\
## Solyc11g005240 & NA & NA\\
## \addlinespace
## Solyc11g008020 & AT5G03530 & ATRAB ALPHA (Arabidopsis Rab GTPase homolog C2a); GTP binding; similar to AtRABC2b/AtRab18C (Arabidopsis Rab GTPase homolog C2b), GTP binding [Arabidopsis thaliana] (TAIR:AT3G09910.1); similar to RAB1X [Lotus japonicus] (GB:CAA98163.1); contains InterPro domain Small GTP-binding protein domain; (InterPro:IPR005225); contains InterPro domain Ras small GTPase, Rab type; (InterPro:IPR003579); contains InterPro domain Sigma-54 factor, interaction region; (InterPro:IPR002078); contains InterPro domain Ras GTPase; (InterPro:IPR001806); contains InterPro domain Ras; (InterPro:IPR013753)\\
## Solyc11g008060 & NA & NA\\
## Solyc11g008380 & AT3G10370 & mitochondrial FAD-dependent glycerol-3-phosphate dehydrogenase. possibly involved in storage lipid catabolism and glycerol assimilation, and in glycerol-3-phosphate shuttle which transports reducing power from cytosol to mitochondrion.\\
## Solyc11g010220 & NA & NA\\
## Solyc11g011340 & AT4G39330 & mannitol dehydrogenase, putative; Identical to Probable mannitol dehydrogenase (EC 1.1.1.255) (NAD-dependent mannitol dehydrogenase) (CAD1) [Arabidopsis Thaliana] (GB:P42734); similar to mannitol dehydrogenase, putative [Arabidopsis thaliana] (TAIR:AT2G21890.1); similar to mannitol dehydrogenase, putative [Arabidopsis thaliana] (TAIR:AT2G21730.1); similar to cinnamyl-alcohol dehydrogenase (GB:AAA74746.1); similar to Probable mannitol dehydrogenase (NAD-dependent mannitol dehydrogenase) (GB:P42734); contains InterPro domain GroES-like; (InterPro:IPR011032); contains InterPro domain Alcohol dehydrogenase superfamily, zinc-containing; (InterPro:IPR002085); contains InterPro domain Alcohol dehydrogenase, zinc-binding; (InterPro:IPR013149); contains InterPro domain Alcohol dehydrogenase GroES-like; (InterPro:IPR013154)\\
## \addlinespace
## Solyc11g030910 & NA & NA\\
## Solyc11g044680 & NA & NA\\
## Solyc11g065020 & NA & NA\\
## Solyc11g065650 & NA & NA\\
## Solyc11g071370 & AT1G05750 & PDE247 (PIGMENT DEFECTIVE 247); binding; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G20540.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABD32761.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc11g071740 & NA & NA\\
## Solyc11g071760 & NA & NA\\
## Solyc12g008610 & NA & NA\\
## Solyc12g010420 & NA & NA\\
## Solyc12g036870 & NA & NA\\
## \addlinespace
## Solyc12g040330 & NA & NA\\
## Solyc12g042630 & NA & NA\\
## Solyc12g056200 & AT4G11350 & similar to fringe-related protein [Arabidopsis thaliana] (TAIR:AT4G23490.1); similar to hypothetical protein [Trifolium pratense] (GB:BAE71200.1); contains InterPro domain Protein of unknown function DUF604; (InterPro:IPR006740)\\
## Solyc12g056890 & NA & NA\\
## Solyc12g095870 & AT4G32830 & Encodes a member of a family of Ser/Thr kinases whose activities peak during cell division. Transcripts are abundant in tissues rich in dividing cells like roots and flowers but are low or absent in fully expanded leaves and stems. In interphase cells, the protein is predominantly nuclear. During mitosis, the protein associates with plant-specific cytoskeletal structures (preprophase band, phragmoplast, nascent cell plate) that are necessary for cytokinesis as well as with the microtubule spindle. It specifically phosphorylates Ser10 of histone H3 and colocalizes with phosphorylated histone H3 during mitosis.\\
## \bottomrule
## \end{tabular}Cluster 2
clusterVis(2)## Using gene as id variables
clusterVis_PCA(2)
clusterVis_line(2)## Using gene, curated as id variables
##clusterGO(2)
y <- genesInClust(2, data.val2, annotation)## [1] 111kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g007310 & NA & NA\\
## Solyc00g020000 & NA & NA\\
## Solyc00g023570 & NA & NA\\
## Solyc01g005370 & AT1G24620 & polcalcin, putative / calcium-binding pollen allergen, putative; similar to calcium-binding protein, putative [Arabidopsis thaliana] (TAIR:AT1G18210.2); similar to calcium-binding pollen allergen [Arachis hypogaea] (GB:AAZ20284.1); contains InterPro domain EF-Hand type; (InterPro:IPR011992); contains InterPro domain Calcium-binding EF-hand; (InterPro:IPR002048); contains InterPro domain Flagellar calcium-binding protein (calflagin); (InterPro:IPR003299)\\
## Solyc01g010430 & AT3G28630 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G59710.1); similar to Cytosolic fatty-acid binding; Actin-crosslinking proteins [Medicago truncatula] (GB:ABE82702.1); contains InterPro domain Protein of unknown function DUF569; (InterPro:IPR007679); contains InterPro domain Actin-crosslinking proteins; (InterPro:IPR008999)\\
## \addlinespace
## Solyc01g010460 & NA & NA\\
## Solyc01g010680 & NA & NA\\
## Solyc01g014080 & NA & NA\\
## Solyc01g034160 & NA & NA\\
## Solyc01g060390 & NA & NA\\
## \addlinespace
## Solyc01g081560 & AT1G16480 & pseudogene of pentatricopeptide (PPR) repeat-containing protein\\
## Solyc01g090390 & AT2G44880 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G29230.1); similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G08070.1); similar to Asp/Glu racemase [Medicago truncatula] (GB:ABE92336.1); similar to Asp/Glu racemase; Polynucleotidyl transferase, Ribonuclease H fold [Medicago truncatula] (GB:ABE89255.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc01g094590 & AT4G23340 & oxidoreductase, 2OG-Fe(II) oxygenase family protein; similar to gibberellin 20-oxidase-related [Arabidopsis thaliana] (TAIR:AT5G51310.1); similar to 2OG-Fe(II) oxygenase [Medicago truncatula] (GB:ABD32837.1); contains InterPro domain Isopenicillin N synthase; (InterPro:IPR002283); contains InterPro domain 2OG-Fe(II) oxygenase; (InterPro:IPR005123)\\
## Solyc01g094840 & NA & NA\\
## Solyc01g101070 & AT3G53480 & ATPDR9/PDR9 (PLEIOTROPIC DRUG RESISTANCE 9); ATPase, coupled to transmembrane movement of substances; Identical to Probable pleiotropic drug resistance protein 9 (PDR9) [Arabidopsis Thaliana] (GB:Q9LFH0); similar to ATPDR5/PDR5 (PLEIOTROPIC DRUG RESISTANCE 5), ATPase, coupled to transmembrane movement of substances [Arabidopsis thaliana] (TAIR:AT2G37280.1); similar to ATPDR13/PDR13 (PLEIOTROPIC DRUG RESISTANCE 13), ATP binding / ATPase/ nucleoside-triphosphatase/ nucleotide binding [Arabidopsis thaliana] (TAIR:AT4G15215.1); similar to ABC transporter family protein [Arabidopsis thaliana] (TAIR:AT4G15236.1); similar to Pleiotropic drug resistance protein 15 (GB:Q7FMW4); similar to Pleiotropic drug resistance protein 3 (NtPDR3) (GB:Q5W274); similar to PDR-like ABC transporter [Oryza sativa (japonica cultivar-group)] (GB:CAD59575.1); contains InterPro domain ABC-2 type transporter; (InterPro:IPR013525); contains InterPro domain Plant PDR ABC transporter associated; (InterPro:IPR013581); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain ABC transporter related; (InterPro:IPR003439)\\
## \addlinespace
## Solyc01g108010 & AT2G15560 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G62200.1); similar to EDA32 (embryo sac development arrest 32) [Arabidopsis thaliana] (TAIR:AT3G62210.1); similar to Os07g0637200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060400.1); similar to Protein of unknown function DUF537 [Medicago truncatula] (GB:ABE81607.1); similar to Os08g0230500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061299.1); contains InterPro domain Protein of unknown function DUF537; (InterPro:IPR007491)\\
## Solyc02g011810 & NA & NA\\
## Solyc02g036480 & AT1G65690 & harpin-induced protein-related / HIN1-related / harpin-responsive protein-related; similar to NHL25 (NDR1/HIN1-LIKE 25) [Arabidopsis thaliana] (TAIR:AT5G36970.1); similar to Os04g0677300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054263.1); similar to unknown pollen protein [Petunia integrifolia subsp. inflata] (GB:AAS90599.1); contains InterPro domain Harpin-induced 1; (InterPro:IPR010847)\\
## Solyc02g065510 & AT5G66631 & NA\\
## Solyc02g073580 & AT4G18650 & transcription factor-related; similar to ZW2 [Arabidopsis thaliana] (TAIR:AT1G58330.1); similar to predicted protein [Gossypium hirsutum] (GB:AAT64037.1)\\
## \addlinespace
## Solyc02g080220 & AT1G11580 & pectin methylesterase, putative; similar to pectin methylesterase, putative [Arabidopsis thaliana] (TAIR:AT1G11590.1); similar to pectin methylesterase [Sesbania rostrata] (GB:CAD29733.1); contains InterPro domain Virulence factor, pectin lyase fold; (InterPro:IPR011050); contains InterPro domain Plant invertase/pectin methylesterase inhibitor; (InterPro:IPR007186); contains InterPro domain Pectinesterase; (InterPro:IPR000070); contains InterPro domain Pectinesterase inhibitor; (InterPro:IPR006501)\\
## Solyc02g080550 & NA & NA\\
## Solyc02g081340 & AT3G03190 & Encodes glutathione transferase belonging to the phi class of GSTs. Naming convention according to Wagner et al. (2002).\\
## Solyc02g089030 & NA & NA\\
## Solyc02g092210 & AT2G22900 & galactosyl transferase GMA12/MNN10 family protein; Identical to Putative glycosyltransferase 7 (EC 2.4.-.-) (AtGT7) (GT7) [Arabidopsis Thaliana] (GB:O81007); similar to galactosyl transferase GMA12/MNN10 family protein [Arabidopsis thaliana] (TAIR:AT4G37690.1); similar to galactomannan galactosyltransferase [Senna occidentalis] (GB:CAI79403.1); contains InterPro domain Galactosyl transferase; (InterPro:IPR008630)\\
## \addlinespace
## Solyc02g092570 & AT3G49950 & scarecrow transcription factor family protein; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G67411.1); similar to GRAS transcription factor [Medicago truncatula] (GB:ABE82519.1); contains InterPro domain GRAS transcription factor; (InterPro:IPR005202)\\
## Solyc03g013220 & ATMG00520 & hypothetical protein\\
## Solyc03g025580 & AT5G23870 & pectinacetylesterase family protein; similar to pectinacetylesterase family protein [Arabidopsis thaliana] (TAIR:AT3G62060.1); similar to pectin acetylesterase [Eucalyptus globulus subsp. globulus] (GB:ABG34281.1); contains InterPro domain Pectinacetylesterase; (InterPro:IPR004963)\\
## Solyc03g031760 & AT4G04890 & Encodes a homeodomain protein that is expressed in the LI layer of the vegetative, floral and inflorescence meristems. Binds to the L1 box promoter element which is required in some proteins for L1 specific expression.\\
## Solyc03g093580 & NA & NA\\
## \addlinespace
## Solyc03g114910 & AT5G60920 & Encodes a glycosylphosphatidylinositol-anchored protein localized primarily in the plasma membrane of the longitudinal sides of root cells. Necessary for oriented cell expansion in Arabidopsis. Cob mutants have abnormal roots that expand radially rather than longitudinally under certain growth conditions.\\
## Solyc04g005600 & NA & NA\\
## Solyc04g014400 & NA & NA\\
## Solyc04g025270 & NA & NA\\
## Solyc04g040220 & AT2G41370 & Encodes a cytoplasmic and nuclear-localized NPR1 like protein with BTB/POZ domain and ankyrin repeats. Interacts with BOP1 and appears to be genetically redundant with BOP1.bop1/bop2 double mutants have longer leaves, often with leaflets on the petiole, and asymmetric flowers with extra organs.\\
## \addlinespace
## Solyc04g055070 & NA & NA\\
## Solyc04g064850 & AT1G77220 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G38360.2); similar to MAP kinase activating protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD61807.1); similar to Os05g0516900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056049.1); contains InterPro domain Protein of unknown function DUF300; (InterPro:IPR005178)\\
## Solyc04g072580 & AT4G26270 & phosphofructokinase family protein; similar to phosphofructokinase family protein [Arabidopsis thaliana] (TAIR:AT4G32840.1); similar to phosphofructokinase family protein [Arabidopsis thaliana] (TAIR:AT5G56630.1); similar to phosphofructokinase family protein [Arabidopsis thaliana] (TAIR:AT4G29220.1); similar to Phosphofructokinase [Medicago truncatula] (GB:ABE84859.1); similar to Phosphofructokinase, putative [Medicago truncatula] (GB:ABE90419.1); similar to Phosphofructokinase [Medicago truncatula] (GB:ABE80791.1); contains InterPro domain Pyrophosphate-dependent phosphofructokinase TP0108; (InterPro:IPR012004); contains InterPro domain Phosphofructokinase; (InterPro:IPR000023)\\
## Solyc04g074020 & NA & NA\\
## Solyc04g078140 & NA & NA\\
## \addlinespace
## Solyc05g006900 & NA & NA\\
## Solyc05g011920 & AT1G69040 & ACT-domain containing protein involved in feedback regulation of amino acid metabolism\\
## Solyc05g015440 & NA & NA\\
## Solyc05g026300 & NA & NA\\
## Solyc05g050130 & AT5G24090 & acidic endochitinase (CHIB1); Identical to Acidic endochitinase precursor (EC 3.2.1.14) (CHIB1) [Arabidopsis Thaliana] (GB:O22072;GB:O22073;GB:O24614;GB:Q5HYZ8); similar to acidic endochitinase (GB:AAA32768.1); contains InterPro domain Glycoside hydrolase, chitinase active site; (InterPro:IPR001579); contains InterPro domain Glycoside hydrolase, family 18; (InterPro:IPR001223)\\
## \addlinespace
## Solyc05g052240 & AT5G05270 & chalcone-flavanone isomerase family protein; similar to TT5 (TRANSPARENT TESTA 5), chalcone isomerase [Arabidopsis thaliana] (TAIR:AT3G55120.1); similar to Os12g0115700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065990.1); similar to putative chalcone isomerase 4 [Glycine max] (GB:AAT94362.1); similar to Os11g0116300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065587.1); contains InterPro domain Chalcone-flavanone isomerase; (InterPro:IPR003466)\\
## Solyc06g005980 & AT5G05730 & ASA1 encodes the alpha subunit of anthranilate synthase, which catalyzes the rate-limiting step of tryptophan synthesis. ASA1 is induced by ethylene, and forms a link between ethylene signalling and auxin synthesis in roots.\\
## Solyc06g050370 & NA & NA\\
## Solyc06g063210 & NA & NA\\
## Solyc06g064600 & AT1G56690 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G02750.1); similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G09410.1); similar to pentatricopeptide, putative [Oryza sativa (japonica cultivar-group)] (GB:ABF95626.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc06g066080 & NA & NA\\
## Solyc06g067910 & AT5G11420 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G25460.1); similar to unknown [Ricinus communis] (GB:CAB02653.1); contains InterPro domain Galactose-binding like; (InterPro:IPR008979); contains InterPro domain Protein of unknown function DUF642; (InterPro:IPR006946)\\
## Solyc06g068210 & AT1G80010 & FRS8 (FAR1-related sequence 8); zinc ion binding; similar to FRS6 (FAR1-related sequence 6), zinc ion binding [Arabidopsis thaliana] (TAIR:AT1G52520.1); similar to Heavy metal transport/detoxification protein [Medicago truncatula] (GB:ABE93744.1); contains InterPro domain Zinc finger, PMZ-type; (InterPro:IPR006564); contains InterPro domain Zinc finger, SWIM-type; (InterPro:IPR007527); contains InterPro domain FAR1; (InterPro:IPR004330)\\
## Solyc06g069460 & NA & NA\\
## Solyc06g074600 & NA & NA\\
## \addlinespace
## Solyc06g082840 & NA & NA\\
## Solyc07g007560 & AT5G20380 & transporter-related; similar to ANTR2 (anion transporter 2), organic anion transporter [Arabidopsis thaliana] (TAIR:AT4G00370.1); similar to Major facilitator superfamily MFS_1 [Medicago truncatula] (GB:ABE87274.1); contains InterPro domain Major facilitator superfamily; (InterPro:IPR007114); contains InterPro domain Major facilitator superfamily MFS_1; (InterPro:IPR011701)\\
## Solyc07g008400 & AT3G04690 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G28680.1); similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT3G51550.1); similar to Os05g0280700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055089.1); similar to putative receptor-like protein kinase [Oryza sativa (japonica cultivar-group)] (GB:BAD81103.1); similar to receptor protein kinase-like protein [Capsicum annuum] (GB:AAL40864.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc07g021240 & NA & NA\\
## Solyc07g038160 & NA & NA\\
## \addlinespace
## Solyc07g052410 & AT3G21700 & GTP binding; similar to GTP-binding family protein [Arabidopsis thaliana] (TAIR:AT5G54840.1); similar to Ras small GTPase, Rab type [Medicago truncatula] (GB:ABE83942.1); contains InterPro domain Miro-like; (InterPro:IPR013684); contains InterPro domain Ras GTPase; (InterPro:IPR001806)\\
## Solyc07g061770 & NA & NA\\
## Solyc07g064990 & AT5G55250 & Encodes an enzyme which specifically converts IAA to its methyl ester form MelIAA. This gene belongs to the family of carboxyl methyltransferases whose members catalyze the transfer of the methyl group from S-adenosyl-L-methionine to carboxylic acid-containing substrates to form small molecule methyl esters. Expression of TCP genes is downregulated in mutant iamt1-D.\\
## Solyc07g065500 & NA & NA\\
## Solyc08g005920 & AT3G52860 & similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE94614.1); similar to Os05g0154900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054686.1)\\
## \addlinespace
## Solyc08g007440 & AT1G62730 & similar to Os06g0104100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056548.1); similar to PREDICTED: similar to CG15738-PA [Rattus norve (GB:XP_232684.3); contains InterPro domain Terpenoid synthase; (InterPro:IPR008949)\\
## Solyc08g008390 & AT4G23990 & encodes a protein similar to cellulose synthase\\
## Solyc08g036520 & NA & NA\\
## Solyc08g062850 & ATCG01280 & Identical to Protein ycf2 (ycf2-B) [Arabidopsis Thaliana] (GB:P56786); similar to hypothetical chloroplast RF2 [Vitis vinifera] (GB:YP_567121.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41290.1); similar to hypothetical chloroplast RF2 [Gossypium hirsutum] (GB:YP_538978.1); contains InterPro domain Chloroplast Ycf2; (InterPro:IPR008543); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc08g068820 & NA & NA\\
## \addlinespace
## Solyc08g069210 & NA & NA\\
## Solyc08g074630 & NA & NA\\
## Solyc08g075730 & AT5G18400 & similar to Protein of unknown function DUF689 [Medicago truncatula] (GB:ABE78163.1); contains InterPro domain Protein of unknown function DUF689; (InterPro:IPR007785)\\
## Solyc08g077200 & AT1G32380 & ribose-phosphate pyrophosphokinase 2 / phosphoribosyl diphosphate synthetase 2 (PRS2); Identical to Ribose-phosphate pyrophosphokinase 2 (EC 2.7.6.1) (Phosphoribosyl pyrophosphate synthetase 2) (PRS II) (PRS2) [Arabidopsis Thaliana] (GB:Q42583;GB:Q9LQM0); similar to ribose-phosphate pyrophosphokinase 1 / phosphoribosyl diphosphate synthetase 1 (PRSI) [Arabidopsis thaliana] (TAIR:AT2G35390.2); similar to Ribose-phosphate pyrophosphokinase 2, chloroplast precursor (Phosphoribosyl pyrophosphate synthetase 2) (GB:Q9XG99); contains InterPro domain Phosphoribosyl pyrophosphate synthetase; (InterPro:IPR000842); contains InterPro domain Phosphoribosyltransferase; (InterPro:IPR000836); contains InterPro domain Ribose-phosphate pyrophosphokinase; (InterPro:IPR005946)\\
## Solyc08g083070 & AT5G41950 & binding; similar to Os10g0518300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065074.1); similar to Os03g0113800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048738.1); similar to unknown [Vitis vinifera] (GB:AAP30737.1); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc09g007480 & NA & NA\\
## Solyc09g018940 & NA & NA\\
## Solyc09g065780 & NA & NA\\
## Solyc09g074540 & NA & NA\\
## Solyc09g075240 & NA & NA\\
## \addlinespace
## Solyc09g082660 & AT1G67980 & Encodes S-adenosyl-L-methionine: transcaffeoyl Coenzyme A 3-O-methyltransferase.\\
## Solyc09g091510 & AT5G13930 & Encodes chalcone synthase (CHS), a key enzyme involved in the biosynthesis of flavonoids. Required for the accumulation of purple anthocyanins in leaves and stems. Also involved in the regulation of auxin transport and the modulation of root gravitropism.\\
## Solyc10g006150 & NA & NA\\
## Solyc10g008430 & NA & NA\\
## Solyc10g035570 & NA & NA\\
## \addlinespace
## Solyc10g049570 & NA & NA\\
## Solyc10g074350 & NA & NA\\
## Solyc10g074590 & AT4G35360 & pantothenate kinase family protein; similar to pantothenate kinase-related [Arabidopsis thaliana] (TAIR:AT2G17340.1); similar to Os06g0325500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057524.1); similar to unnamed protein product [Ostreococcus tauri] (GB:CAL52501.1); contains InterPro domain Protein of unknown function DUF89; (InterPro:IPR002791)\\
## Solyc11g005960 & AT1G20230 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G23330.1); similar to Os05g0370000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055349.1); similar to PPR868-14 [Physcomitrella patens] (GB:BAD67154.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc11g013500 & NA & NA\\
## \addlinespace
## Solyc11g018580 & AT1G77590 & Encodes major plastidic long chain acyl-CoA synthetase with a slight substrate preference of oleic acid over any of the other fatty acids.\\
## Solyc11g021250 & NA & NA\\
## Solyc11g021310 & ATCG01130 & Identical to Putative membrane protein ycf1 (ycf1-B) [Arabidopsis Thaliana] (GB:P56785); similar to hypothetical chloroplast RF1 [Gossypium hirsutum] (GB:YP_538982.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41305.1); similar to hypothetical chloroplast RF1 [Eucalyptus globulus subsp. globulus] (GB:YP_636357.1); contains InterPro domain Ycf1; (InterPro:IPR008896)\\
## Solyc11g045290 & NA & NA\\
## Solyc11g051150 & NA & NA\\
## \addlinespace
## Solyc11g063490 & NA & NA\\
## Solyc11g063640 & NA & NA\\
## Solyc11g066580 & NA & NA\\
## Solyc11g072790 & NA & NA\\
## Solyc12g006530 & AT1G78950 & beta-amyrin synthase, putative; similar to LUP1 (LUPEOL SYNTHASE 1), lupeol synthase [Arabidopsis thaliana] (TAIR:AT1G78970.1); similar to ATLUP2 (Arabidopsis thaliana lupeol synthase 2), lupeol synthase [Arabidopsis thaliana] (TAIR:AT1G78960.1); similar to beta-amyrin synthase, putative [Arabidopsis thaliana] (TAIR:AT1G78955.1); similar to beta-amyrin synthase [Medicago truncatula] (GB:CAD23247.1); similar to beta-amyrin synthase [Betula platyphylla] (GB:BAB83088.1); similar to beta-amyrin synthase [Medicago truncatula] (GB:AAO33578.1); contains InterPro domain Prenyltransferase/squalene oxidase; (InterPro:IPR001330); contains InterPro domain Terpene synthase; (InterPro:IPR002365); contains InterPro domain Terpenoid cylases/protein prenyltransferase alpha-alpha toroid; (InterPro:IPR008930)\\
## \addlinespace
## Solyc12g014140 & NA & NA\\
## Solyc12g019080 & AT2G43900 & endonuclease/exonuclease/phosphatase family protein; similar to endonuclease/exonuclease/phosphatase family protein [Arabidopsis thaliana] (TAIR:AT2G31830.1); similar to 5PTASE13/AT5PTASE13, inositol or phosphatidylinositol phosphatase [Arabidopsis thaliana] (TAIR:AT1G05630.2); similar to FRA3 (FRAGILE FIBER3), inositol or phosphatidylinositol phosphatase [Arabidopsis thaliana] (TAIR:AT1G65580.1); similar to Os09g0500300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063577.1); similar to Inositol polyphosphate related phosphatase; PapD-like; WD40-like [Medicago truncatula] (GB:ABE79233.1); similar to Os08g0524100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062285.1); contains InterPro domain Inositol polyphosphate related phosphatase; (InterPro:IPR000300); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046); contains InterPro domain Endonuclease/exonuclease/phosphatase; (InterPro:IPR005135)\\
## Solyc12g035490 & AT1G67420 & peptidase; similar to 24 kDa vacuolar protein, putative [Arabidopsis thaliana] (TAIR:AT5G20660.1); similar to peptidase family-like protein [Oryza sativa (japonica cultivar-group)] (GB:BAC84537.1); similar to Os07g0295800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059408.1); contains InterPro domain Peptidase M28; (InterPro:IPR007484)\\
## Solyc12g036600 & NA & NA\\
## Solyc12g036640 & NA & NA\\
## \addlinespace
## Solyc12g036710 & NA & NA\\
## Solyc12g049270 & AT1G72660 & GTP binding; similar to ATDRG1 (ARABIDOPSIS THALIANA DEVELOPMENTALLY REGULATED G-PROTEIN 1) [Arabidopsis thaliana] (TAIR:AT1G17470.2); similar to developmentally regulated GTP binding protein [Pisum sativum] (GB:AAB67829.1); similar to Os05g0357600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055297.1); contains InterPro domain GTP-binding protein, HSR1-related; (InterPro:IPR002917); contains InterPro domain Small GTP-binding protein domain; (InterPro:IPR005225); contains InterPro domain GTP1/OBG; (InterPro:IPR006073); contains InterPro domain TGS; (InterPro:IPR004095); contains InterPro domain GTP1/OBG domain; (InterPro:IPR006074)\\
## Solyc12g062570 & NA & NA\\
## Solyc12g062810 & NA & NA\\
## Solyc12g088170 & NA & NA\\
## Solyc12g098590 & NA & NA\\
## \bottomrule
## \end{tabular}Cluster 3
High in the C regions.
clusterVis(3)## Using gene as id variables
clusterVis_PCA(3)
#clusterVis_line(3)
#clusterGO(3)
y <- genesInClust(3, data.val2, annotation)## [1] 151kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g023580 & NA & NA\\
## Solyc00g098560 & NA & NA\\
## Solyc00g188850 & AT3G48980 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G23850.1); similar to OSIGBa0159I10.7 [Oryza sativa (indica cultivar-group)] (GB:CAH67462.1); similar to Os02g0642700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047557.1); similar to Lipopolysaccharide-modifying protein [Medicago truncatula] (GB:ABD33425.1); contains InterPro domain Lipopolysaccharide-modifying protein; (InterPro:IPR006598); contains InterPro domain Protein of unknown function DUF821, CAP10-like; (InterPro:IPR008539)\\
## Solyc01g006740 & AT2G35840 & sucrose-phosphatase 1 (SPP1); similar to sucrose-phosphatase, putative [Arabidopsis thaliana] (TAIR:AT1G51420.1); similar to sucrose phosphate phosphatase [Malus x domestica] (GB:AAS79792.1); contains InterPro domain HAD-superfamily hydrolase subfamily IIB; (InterPro:IPR006379); contains InterPro domain Sucrose phosphatase, plant and cyanobacteria; (InterPro:IPR012847); contains InterPro domain Sucrose-phosphate phosphatase; (InterPro:IPR006378); contains InterPro domain Sucrose-6-phosphate phosphohydrolase C-terminal; (InterPro:IPR013679); contains InterPro domain Sucrose-6F-phosphate phosphohydrolase, plant and cyanobacteria; (InterPro:IPR006380)\\
## Solyc01g067250 & NA & NA\\
## \addlinespace
## Solyc01g067360 & AT5G18650 & zinc finger (C3HC4-type RING finger) family protein; similar to protein binding / zinc ion binding [Arabidopsis thaliana] (TAIR:AT3G62970.1); similar to Os12g0538500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066941.1); similar to CHY zinc finger family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF93958.1); similar to Zinc finger, RING-type; Zinc finger, CHY-type [Medicago truncatula] (GB:ABE83637.1); contains InterPro domain Zinc finger, CHY-type; (InterPro:IPR008913); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc01g087240 & NA & NA\\
## Solyc01g088070 & NA & NA\\
## Solyc01g088750 & AT1G69290 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G68980.1); similar to pentatricopeptide, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95579.1); similar to Os01g0788900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044484.1); similar to Os12g0102600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065238.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885)\\
## Solyc01g094650 & NA & NA\\
## \addlinespace
## Solyc01g095810 & NA & NA\\
## Solyc01g096750 & AT2G27040 & AGO4 (ARGONAUTE 4); similar to PAZ domain-containing protein / piwi domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G21030.1); similar to PAZ domain-containing protein / piwi domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G21150.1); similar to PAZ domain-containing protein / piwi domain-containing protein [Arabidopsis thaliana] (TAIR:AT2G32940.1); similar to AGO4-2 [Nicotiana benthamiana] (GB:ABC61505.1); similar to Argonaute and Dicer protein, PAZ; Stem cell self-renewal protein Piwi [Medicago truncatula] (GB:ABE82627.1); similar to AGO4-1 [Nicotiana benthamiana] (GB:ABC61504.1); contains InterPro domain Argonaute and Dicer protein, PAZ; (InterPro:IPR003100); contains InterPro domain Stem cell self-renewal protein Piwi; (InterPro:IPR003165)\\
## Solyc01g098770 & NA & NA\\
## Solyc01g099920 & NA & NA\\
## Solyc01g100510 & AT1G23380 & homeodomain transcription factor KNAT6, belonging to class I of KN transcription factor family (which also includes KNAT1 and KNAT2). Expression is increased in as and bop1 leaf mutants.\\
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## Solyc01g104320 & AT3G26070 & plastid-lipid associated protein PAP / fibrillin family protein; similar to plastid-lipid associated protein PAP / fibrillin family protein [Arabidopsis thaliana] (TAIR:AT3G26080.1); similar to PAP fibrillin [Medicago truncatula] (GB:ABE82162.1); contains InterPro domain PAP fibrillin; (InterPro:IPR006843)\\
## Solyc01g105430 & NA & NA\\
## Solyc01g106120 & NA & NA\\
## Solyc01g107250 & AT5G21090 & leucine-rich repeat protein, putative; similar to leucine-rich repeat family protein [Arabidopsis thaliana] (TAIR:AT3G43740.1); similar to Leucine-rich repeat, plant specific [Medicago truncatula] (GB:ABE82625.1); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc01g109110 & NA & NA\\
## \addlinespace
## Solyc01g111080 & NA & NA\\
## Solyc02g038670 & NA & NA\\
## Solyc02g055470 & AT3G19780 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G33780.1); similar to Thioredoxin domain 2 [Medicago truncatula] (GB:ABE78179.1); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Thioredoxin domain 2; (InterPro:IPR006663); contains InterPro domain Thioredoxin fold; (InterPro:IPR012335); contains InterPro domain Protein of unknown function DUF179; (InterPro:IPR003774)\\
## Solyc02g065480 & AT5G66600 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G23700.1); similar to Os03g0769000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051393.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAR87323.1); similar to ternary complex factor MIP1, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF99069.1); contains InterPro domain Protein of unknown function DUF547; (InterPro:IPR006869)\\
## Solyc02g067130 & NA & NA\\
## \addlinespace
## Solyc02g068390 & AT1G53530 & signal peptidase I family protein; similar to peptidase [Arabidopsis thaliana] (TAIR:AT1G29960.1); similar to Os11g0620000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001068291.1); similar to signal peptidase I family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA94772.2); contains InterPro domain Peptidase S26A, signal peptidase I; (InterPro:IPR000223); contains InterPro domain Peptidase S24 and S26, C-terminal region; (InterPro:IPR011056); contains InterPro domain Peptidase S24, S26A and S26B; (InterPro:IPR006198)\\
## Solyc02g068710 & AT1G31170 & encodes a cysteine-sulfinic acid reductase (sulfiredoxin - EC 1.8.98.2) capable of reducing overoxidized plastidic 2-Cys-Prx involved in peroxide detoxification and response to oxidative stress\\
## Solyc02g070700 & NA & NA\\
## Solyc02g072430 & NA & NA\\
## Solyc02g079780 & NA & NA\\
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## Solyc02g082520 & AT2G42005 & amino acid transporter family protein; similar to amino acid transporter family protein [Arabidopsis thaliana] (TAIR:AT4G38250.1); similar to amino acid transport protein (GB:AAB82307.1); similar to OSIGBa0158F05.8 [Oryza sativa (indica cultivar-group)] (GB:CAH66759.1); similar to OSJNBa0017B10.14 [Oryza sativa (japonica cultivar-group)] (GB:CAE03099.2); contains InterPro domain Amino acid/polyamine transporter II; (InterPro:IPR002422); contains InterPro domain Amino acid transporter, transmembrane; (InterPro:IPR013057)\\
## Solyc02g082940 & AT2G38320 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G01620.2); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABF95402.1); similar to Os03g0817500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051701.1); similar to Os11g0107000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065543.1); contains InterPro domain Protein of unknown function DUF231, plant; (InterPro:IPR004253)\\
## Solyc02g084100 & NA & NA\\
## Solyc02g085220 & AT4G36630 & EMB2754 (EMBRYO DEFECTIVE 2754); small GTPase regulator; similar to TVLP1 [Oryza sativa (indica cultivar-group)] (GB:ABB45382.1); similar to Citron-like; WD40-like [Medicago truncatula] (GB:ABE78879.1); similar to TGF beta receptor associated protein-like protein [Oryza sativa (japonica cultivar-group)] (GB:AAL58199.1); contains InterPro domain WD40-like; (InterPro:IPR011046); contains InterPro domain Citron-like; (InterPro:IPR001180)\\
## Solyc02g087420 & NA & NA\\
## \addlinespace
## Solyc02g090630 & AT2G26560 & encodes a lipid acyl hydrolase with wide substrate specificity that accumulates upon infection by fungal and bacterial pathogens. Protein is localized in the cytoplasm in healthy leaves, and in membranes in infected cells.\\
## Solyc02g091060 & NA & NA\\
## Solyc02g091610 & NA & NA\\
## Solyc02g093220 & AT5G67140 & F-box family protein; similar to F-box family protein [Arabidopsis thaliana] (TAIR:AT1G21410.1); similar to Os06g0166000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056911.1); similar to F-box family protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD67597.1); contains InterPro domain Cyclin-like F-box; (InterPro:IPR001810); contains InterPro domain Leucine-rich repeat, cysteine-containing; (InterPro:IPR007089)\\
## Solyc03g006960 & AT5G51760 & protein phosphatase 2C, putative / PP2C, putative; similar to protein phosphatase 2C, putative / PP2C, putative [Arabidopsis thaliana] (TAIR:AT2G29380.1); similar to protein phosphatase 2C [Prunus avium] (GB:AAQ03211.1); contains InterPro domain Protein phosphatase 2C; (InterPro:IPR000222); contains InterPro domain Protein phosphatase 2C-like; (InterPro:IPR001932)\\
## \addlinespace
## Solyc03g007770 & AT5G24030 & C4-dicarboxylate transporter/malic acid transport family protein; similar to C4-dicarboxylate transporter/malic acid transport family protein [Arabidopsis thaliana] (TAIR:AT4G27970.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD81510.1); similar to Os01g0385400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043099.1); similar to Os05g0219900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054944.1); contains InterPro domain C4-dicarboxylate transporter/malic acid transport protein; (InterPro:IPR004695)\\
## Solyc03g019640 & NA & NA\\
## Solyc03g025330 & NA & NA\\
## Solyc03g062730 & NA & NA\\
## Solyc03g095700 & NA & NA\\
## \addlinespace
## Solyc03g116410 & NA & NA\\
## Solyc03g117410 & AT1G15750 & Encodes a protein with several WD40 repeats at the C-terminus and predicted protein-protein interaction domains at the N-terminus. Together with the TOPLESS-RELATED PROTEINS (TPRs), it is thought to be involved in transcriptional repression of root-promoting genes in the top help of the embryo during the transition stage of embryogenesis.\\
## Solyc04g005500 & NA & NA\\
## Solyc04g007330 & AT1G67370 & meiotic asynaptic mutant 1 (ASY1)\\
## Solyc04g011670 & AT5G65210 & DNA binding / calmodulin binding / transcription factor; Identical to Transcription factor TGA1 (DNA-binding protein TGA1a-like protein) (AtbZIP47) (TGA1) [Arabidopsis Thaliana] (GB:Q39237;GB:Q8LBQ9;GB:Q9FJP4); similar to TGA4 (TGACG MOTIF-BINDING FACTOR 4), DNA binding / calmodulin binding / transcription factor [Arabidopsis thaliana] (TAIR:AT5G10030.1); similar to 4D11_7 [Brassica rapa subsp. pekinensis] (GB:AAZ67521.1); contains InterPro domain Eukaryotic transcription factor, DNA-binding; (InterPro:IPR008917); contains InterPro domain bZIP transcription factor, bZIP_1; (InterPro:IPR011616); contains InterPro domain Basic-leucine zipper (bZIP) transcription factor; (InterPro:IPR004827)\\
## \addlinespace
## Solyc04g025430 & NA & NA\\
## Solyc04g049310 & NA & NA\\
## Solyc04g051540 & NA & NA\\
## Solyc04g072310 & NA & NA\\
## Solyc04g076970 & NA & NA\\
## \addlinespace
## Solyc04g077690 & NA & NA\\
## Solyc04g079040 & NA & NA\\
## Solyc05g005300 & NA & NA\\
## Solyc05g007870 & NA & NA\\
## Solyc05g012430 & NA & NA\\
## \addlinespace
## Solyc05g012720 & NA & NA\\
## Solyc05g017970 & NA & NA\\
## Solyc05g021150 & NA & NA\\
## Solyc05g021510 & NA & NA\\
## Solyc05g026470 & NA & NA\\
## \addlinespace
## Solyc05g046260 & NA & NA\\
## Solyc05g048800 & NA & NA\\
## Solyc05g051580 & AT5G10250 & phototropic-responsive protein, putative; similar to NPH3 (NON-PHOTOTROPIC HYPOCOTYL 3), signal transducer [Arabidopsis thaliana] (TAIR:AT5G64330.1); similar to 80A08_21 [Brassica rapa subsp. pekinensis] (GB:AAZ67606.1); contains InterPro domain NPH3; (InterPro:IPR004249); contains InterPro domain BTB; (InterPro:IPR000210)\\
## Solyc05g052750 & AT2G40095 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G55880.2); similar to Os03g0123800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048807.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAL58121.1); similar to Os01g0647700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043711.1); contains domain ALPHA/BETA HYDROLASE RELATED (PTHR10992:SF2); contains domain ALPHA/BETA HYDROLASE RELATED (PTHR10992)\\
## Solyc05g054860 & AT3G46290 & protein kinase, putative; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G54380.1); similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT5G59700.1); similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT4G39110.1); similar to Protein kinase [Medicago truncatula] (GB:ABE93789.1); similar to putative receptor-like protein kinase [Oryza sativa (japonica cultivar-group)] (GB:AAT07653.1); similar to putative receptor-like protein kinase [Oryza sativa (japonica cultivar-group)] (GB:AAN64488.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## \addlinespace
## Solyc06g030510 & NA & NA\\
## Solyc06g052060 & NA & NA\\
## Solyc06g063420 & NA & NA\\
## Solyc06g064430 & NA & NA\\
## Solyc06g065830 & AT5G35160 & endomembrane protein 70, putative; similar to endomembrane protein 70, putative [Arabidopsis thaliana] (TAIR:AT4G12650.1); similar to endosomal protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD01346.1); similar to Os02g0722300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047965.1); similar to Os02g0797700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048399.1); contains InterPro domain Nonaspanin (TM9SF); (InterPro:IPR004240)\\
## \addlinespace
## Solyc06g069260 & NA & NA\\
## Solyc06g069340 & NA & NA\\
## Solyc06g072480 & NA & NA\\
## Solyc06g073990 & NA & NA\\
## Solyc06g074150 & NA & NA\\
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## Solyc06g074160 & NA & NA\\
## Solyc06g082560 & AT1G74310 & Encodes ClpB1, which belongs to the Casein lytic proteinase/heat shock protein 100 (Clp/Hsp100) family. Involved in refolding of proteins which form aggregates under heat stress. Also known as AtHsp101. AtHsp101 is a cytosolic heat shock protein required for acclimation to high temperature.\\
## Solyc06g083130 & AT3G25400 & similar to hypothetical protein TTHERM_00522540 [Tetrahymena thermophila SB210] (GB:XP_001014432.1); similar to Os02g0479300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046848.1); similar to Os04g0515400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053311.1); contains InterPro domain EAR; (InterPro:IPR009039)\\
## Solyc07g006100 & AT4G08180 & oxysterol-binding family protein; similar to oxysterol-binding family protein [Arabidopsis thaliana] (TAIR:AT2G31020.1); similar to oxysterol-binding family protein [Arabidopsis thaliana] (TAIR:AT4G22540.1); similar to oxysterol-binding family protein [Arabidopsis thaliana] (TAIR:AT1G13170.1); similar to Oxysterol-binding protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF98451.1); similar to putative oxysterol binding protein [Oryza sativa (japonica cultivar-group)] (GB:AAM97165.2); similar to oxysterol-binding related protein 1 [Petunia integrifolia] (GB:ABB43279.1); contains InterPro domain Oxysterol-binding protein; (InterPro:IPR000648); contains InterPro domain Pleckstrin-like; (InterPro:IPR001849)\\
## Solyc07g006330 & AT5G14850 & mannosyltransferase, putative; similar to sugar binding / transferase, transferring glycosyl groups [Arabidopsis thaliana] (TAIR:AT1G16900.1); similar to Os02g0111400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045653.1); similar to Phosphatidylinositol glycan anchor biosynthesis, class B [Homo sapiens] (GB:AAH17711.1); similar to Os01g0580100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043404.1); contains InterPro domain Alg9-like mannosyltransferase; (InterPro:IPR005599)\\
## \addlinespace
## Solyc07g017990 & AT5G57160 & Encodes the Arabidopsis orthologue of the yeast and mammalian DNA ligase IV. Involved in the repair of DNA damage but, unlike in yeast, not required for T-DNA integration. Interacts with the Arabidopsis homologue of XRCC4.\\
## Solyc07g021420 & NA & NA\\
## Solyc07g032540 & NA & NA\\
## Solyc07g042340 & NA & NA\\
## Solyc07g043410 & NA & NA\\
## \addlinespace
## Solyc07g045200 & NA & NA\\
## Solyc07g049190 & NA & NA\\
## Solyc07g049700 & NA & NA\\
## Solyc07g054000 & NA & NA\\
## Solyc07g054480 & AT1G73710 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G23020.1); similar to crp1-like protein [Oryza sativa (japonica cultivar-group)] (GB:BAC06967.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc07g055670 & NA & NA\\
## Solyc07g062460 & NA & NA\\
## Solyc07g065440 & AT3G13170 & Encodes AtSPO11-1, one of the three Arabidopsis homologues of the archaeal DNA topoisomerase VIA subunit (topo VIA). Required for meiotic recombination. AtSPO11-1 and AtSPO11-2 have overlapping functions (i.e. both required for meiotic recombination) whereas AtSPO11-3 functions in DNA replication.\\
## Solyc07g065540 & NA & NA\\
## Solyc08g005880 & AT1G33110 & MATE efflux family protein; similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G33080.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G33090.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G33100.1); similar to Multi antimicrobial extrusion protein MatE [Medicago truncatula] (GB:ABE91543.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## \addlinespace
## Solyc08g016380 & NA & NA\\
## Solyc08g048540 & NA & NA\\
## Solyc08g062450 & AT5G12020 & 17.6 kDa class II heat shock protein (HSP17.6-CII); Identical to 17.6 kDa class II heat shock protein (HSP17.6II) [Arabidopsis Thaliana] (GB:P29830); similar to AT-HSP17.6A (Arabidopsis thaliana heat shock protein 17.6A) [Arabidopsis thaliana] (TAIR:AT5G12030.1); similar to 17.9 kDa class II heat shock protein (GB:P46516); contains InterPro domain HSP20-like chaperone; (InterPro:IPR008978); contains InterPro domain Heat shock protein Hsp20; (InterPro:IPR002068)\\
## Solyc08g068580 & NA & NA\\
## Solyc08g069060 & AT1G77810 & galactosyltransferase family protein; similar to DD46, transferase, transferring hexosyl groups [Arabidopsis thaliana] (TAIR:AT1G22015.1); similar to Avr9 elicitor response protein [Nicotiana tabacum] (GB:CAA06925.1); contains InterPro domain Glycosyl transferase, family 31; (InterPro:IPR002659)\\
## \addlinespace
## Solyc08g081350 & NA & NA\\
## Solyc08g082500 & AT4G10950 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT5G08460.1); similar to putative GDSL-lipase [Oryza sativa (japonica cultivar-group)] (GB:BAD21752.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc08g083300 & AT4G10570 & ubiquitin carboxyl-terminal hydrolase family protein; similar to ubiquitin carboxyl-terminal hydrolase family protein [Arabidopsis thaliana] (TAIR:AT1G32850.1); similar to UBP5 (UBIQUITIN-SPECIFIC PROTEASE 5), ubiquitin-specific protease [Arabidopsis thaliana] (TAIR:AT2G40930.1); similar to ubiquitin carboxyl-terminal hydrolase family protein [Arabidopsis thaliana] (TAIR:AT4G10590.1); similar to Putative ubiquitin carboxyl terminal hydrolase [Oryza sativa (japonica cultivar-group)] (GB:AAN04210.1); similar to Os10g0160000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064204.1); contains InterPro domain Ubiquitin carboxyl-terminal hydrolase, N-terminal region 1; (InterPro:IPR006615); contains InterPro domain Peptidase C19, ubiquitin carboxyl-terminal hydrolase 2; (InterPro:IPR001394); contains InterPro domain Ubiquitin carboxyl-terminal hydrolase, N-terminal region 2; (InterPro:IPR010460)\\
## Solyc09g008030 & NA & NA\\
## Solyc09g008070 & AT5G03340 & (Cell division control protein 48 homolog E); ATPase; Identical to Cell division control protein 48 homolog E (AtCDC48e) (Transitional endoplasmic reticulum ATPase E) (CDC48E) [Arabidopsis Thaliana] (GB:Q9LZF6); similar to cell division cycle protein 48, putative / CDC48, putative [Arabidopsis thaliana] (TAIR:AT3G53230.1); similar to CDC48 (CELL DIVISION CYCLE 48), ATPase [Arabidopsis thaliana] (TAIR:AT3G09840.1); similar to putative spindle disassembly related protein CDC48 [Nicotiana tabacum] (GB:ABF59516.1); similar to Cell division cycle protein 48 homolog (Valosin-containing protein homolog) (VCP) (GB:P54774); similar to Cell division cycle protein 48, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:AAP53974.2); contains InterPro domain Aspartate decarboxylase-like fold; (InterPro:IPR009010); contains InterPro domain AAA-protein subdomain; (InterPro:IPR003960); contains InterPro domain AAA ATPase, CDC48; (InterPro:IPR005938); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase VAT, N-terminal; (InterPro:IPR003338); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## \addlinespace
## Solyc09g011160 & AT3G53830 & regulator of chromosome condensation (RCC1) family protein / UVB-resistance protein-related; similar to regulator of chromosome condensation (RCC1) family protein [Arabidopsis thaliana] (TAIR:AT3G55580.1); similar to Os01g0846800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044792.1); similar to UVB-resistance protein UVR8-like [Oryza sativa (japonica cultivar-group)] (GB:BAD82660.1); contains InterPro domain Regulator of chromosome condensation, RCC1; (InterPro:IPR000408); contains InterPro domain Regulator of chromosome condensation/beta-lactamase-inhibitor protein II; (InterPro:IPR009091)\\
## Solyc09g055970 & NA & NA\\
## Solyc09g056090 & NA & NA\\
## Solyc09g056220 & NA & NA\\
## Solyc09g064740 & AT3G27970 & exonuclease; similar to exonuclease family protein [Arabidopsis thaliana] (TAIR:AT5G40310.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAB16921.1); similar to Os02g0709000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047886.1); contains InterPro domain Exonuclease; (InterPro:IPR006055); contains InterPro domain Polynucleotidyl transferase, Ribonuclease H fold; (InterPro:IPR012337); contains InterPro domain Zinc finger, C2H2-type; (InterPro:IPR007087); contains InterPro domain Exonuclease, RNase T and DNA polymerase III; (InterPro:IPR013520)\\
## \addlinespace
## Solyc09g065240 & AT3G63200 & PLA IIIB/PLP9 (Patatin-like protein 9); nutrient reservoir; similar to PLA IIB/PLP6 (Patatin-like protein 6), nutrient reservoir [Arabidopsis thaliana] (TAIR:AT2G39220.1); similar to putative lipid acyl hydrolase [Oryza sativa] (GB:AAK72885.1); similar to Os03g0254400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049586.1); contains InterPro domain Patatin; (InterPro:IPR002641)\\
## Solyc09g075740 & NA & NA\\
## Solyc09g075870 & AT3G22400 & lipoxygenase, putative; similar to LOX3 (Lipoxygenase 3), iron ion binding / lipoxygenase [Arabidopsis thaliana] (TAIR:AT1G17420.1); similar to LOX1 (Lipoxygenase 1), lipoxygenase [Arabidopsis thaliana] (TAIR:AT1G55020.1); similar to lipoxygenase, putative [Arabidopsis thaliana] (TAIR:AT1G72520.1); similar to lipoxygenase [Fragaria x ananassa] (GB:CAE17327.1); similar to lipoxygenase [Corylus avellana] (GB:CAD10740.1); similar to lipoxygenase-9 [Cucumis sativus] (GB:CAB83038.1); contains InterPro domain Lipoxygenase, LH2; (InterPro:IPR001024); contains InterPro domain Plant lipoxygenase; (InterPro:IPR001246); contains InterPro domain Lipase/lipooxygenase, PLAT/LH2; (InterPro:IPR008976); contains InterPro domain Lipoxygenase; (InterPro:IPR000907)\\
## Solyc09g089980 & NA & NA\\
## Solyc09g090180 & NA & NA\\
## \addlinespace
## Solyc09g090310 & NA & NA\\
## Solyc10g005450 & AT4G05120 & Encodes an equilibrative nucleoside transporter AtENT3. Mutations of this locus allow mutants to grow on uridine analogue fluorouridine.\\
## Solyc10g007660 & AT1G17200 & integral membrane family protein; similar to integral membrane family protein [Arabidopsis thaliana] (TAIR:AT3G14380.1); similar to hypothetical protein [Gossypium hirsutum] (GB:CAC84114.1); contains InterPro domain Protein of unknown function DUF588; (InterPro:IPR006702); contains InterPro domain Conserved hypothetical protein CHP1569, integral membrane plant; (InterPro:IPR006459)\\
## Solyc10g008440 & AT4G28250 & putative beta-expansin/allergen protein. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio). Involved in the formation of nematode-induced syncytia in roots of Arabidopsis thaliana.\\
## Solyc10g009640 & AT2G46370 & An auxin-induced gene encoding a cytoplasmic localized phytochrome A signaling component protein similar to the GH3 family of proteins Loss of function mutants are defective in a variety of responses to jasmonic acid.\\
## \addlinespace
## Solyc10g038060 & NA & NA\\
## Solyc10g049750 & NA & NA\\
## Solyc10g051090 & NA & NA\\
## Solyc10g054520 & NA & NA\\
## Solyc10g054530 & AT4G20860 & FAD-binding domain-containing protein; similar to FAD-binding domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G44360.1); similar to FAD-linked oxidoreductase 1 [Glycine max] (GB:ABC41950.1); contains InterPro domain FAD linked oxidase, N-terminal; (InterPro:IPR006094); contains InterPro domain Berberine/berberine-like; (InterPro:IPR012951); contains InterPro domain Oxygen oxidoreductase covalent FAD-binding site; (InterPro:IPR006093)\\
## \addlinespace
## Solyc10g074900 & AT1G06840 & leucine-rich repeat transmembrane protein kinase, putative; similar to ATP binding / kinase/ protein serine/threonine kinase [Arabidopsis thaliana] (TAIR:AT5G01950.1); similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT5G37450.1); similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT3G53590.1); similar to Protein kinase; Adipokinetic hormone [Medicago truncatula] (GB:ABE77704.1); similar to Protein kinase [Medicago truncatula] (GB:ABE77702.1); similar to unkown protein [Oryza sativa (japonica cultivar-group)] (GB:AAW56867.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc10g079460 & AT2G41370 & Encodes a cytoplasmic and nuclear-localized NPR1 like protein with BTB/POZ domain and ankyrin repeats. Interacts with BOP1 and appears to be genetically redundant with BOP1.bop1/bop2 double mutants have longer leaves, often with leaflets on the petiole, and asymmetric flowers with extra organs.\\
## Solyc11g007480 & NA & NA\\
## Solyc11g007490 & NA & NA\\
## Solyc11g011440 & AT1G66180 & aspartyl protease family protein; similar to aspartyl protease family protein [Arabidopsis thaliana] (TAIR:AT5G37540.1); similar to Os01g0844500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044781.1); similar to Aspartic proteinase nepenthesin-1 precursor (Nepenthesin-I) (GB:Q766C3); similar to Os03g0271900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049694.1); contains InterPro domain Peptidase A1, pepsin; (InterPro:IPR001461); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007)\\
## \addlinespace
## Solyc11g013150 & AT4G08250 & scarecrow transcription factor family protein; similar to SCR (SCARECROW), transcription factor [Arabidopsis thaliana] (TAIR:AT3G54220.1); similar to Nodulation signaling pathway 2 protein (GB:Q5NE24); contains InterPro domain GRAS transcription factor; (InterPro:IPR005202)\\
## Solyc11g013380 & NA & NA\\
## Solyc11g016970 & AT1G71870 & MATE efflux family protein; similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT5G49130.1); similar to Multi antimicrobial extrusion protein MatE [Medicago truncatula] (GB:ABE77554.1); similar to Os03g0839200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051841.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## Solyc11g020190 & AT5G05680 & nuclear pore complex protein-related; similar to B0402A04.2 [Oryza sativa (indica cultivar-group)] (GB:CAH67135.1); similar to Os04g0608400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053813.1); similar to OSJNBa0060N03.11 [Oryza sativa (japonica cultivar-group)] (GB:CAE03646.2); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc11g020570 & NA & NA\\
## \addlinespace
## Solyc11g028330 & NA & NA\\
## Solyc11g030860 & NA & NA\\
## Solyc11g030880 & NA & NA\\
## Solyc11g040240 & NA & NA\\
## Solyc11g043070 & NA & NA\\
## \addlinespace
## Solyc11g056290 & NA & NA\\
## Solyc12g017230 & NA & NA\\
## Solyc12g017850 & NA & NA\\
## Solyc12g042880 & NA & NA\\
## Solyc12g056920 & AT5G10180 & Encodes a low-affinity sulfate transporter expressed in the root cap and central cylinder, where it is induced by sulfur starvation. Expression in the shoot vascular system is not induced by sulfur starvation.\\
## Solyc12g098450 & AT4G13800 & permease-related; similar to permease-related [Arabidopsis thaliana] (TAIR:AT3G23870.1); similar to OSJNBa0069D17.4 [Oryza sativa (japonica cultivar-group)] (GB:CAD40575.1); similar to Os05g0424800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055595.1); similar to Protein of unknown function DUF803 [Medicago truncatula] (GB:ABE89975.1); contains InterPro domain Protein of unknown function DUF803; (InterPro:IPR008521)\\
## \bottomrule
## \end{tabular}Cluster 4
Included: Solyc10g076790 & AT2G38120 & Encodes an auxin influx transporter. AUX1 resides at the apical plasma membrane of protophloem cells and at highly dynamic subpopulations of Golgi apparatus and endosomes in all cell types. AUX1 action in the lateral root cap and/or epidermal cells influences lateral root initiation and positioning.
Solyc06g065630 & AT5G11320 & Belongs to the YUC gene family. Encodes a predicted flavin monooxygenase YUC4 involved in auxin biosynthesis and plant development.
Solyc01g087990 & AT5G13790 & AGL15 (AGAMOUS-Like 15) is a member of the MADS domain family of regulatory factors. Although AGL15 is preferentially expressed during embryogenesis, AGL15 is also expressed in leaf primordia, shoot apical meristems and young floral buds, suggesting that AGL15 may play a role during post-germinative development. Transgenic plants that ectopically express AGL15 show delays in the transition to flowering, perianth abscission and senescence and fruit and seed maturation.
Solyc01g034150 & AT5G44740 & UMUC-like DNA repair family protein; similar to REV1 (Reversionless 1), damaged DNA binding / magnesium ion binding / nucleotidyltransferase [Arabidopsis thaliana] (TAIR:AT5G44750.1); similar to Os01g0757800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044297.1); similar to putative DNA polymerase [Oryza sativa (japonica cultivar-group)] (GB:BAD87579.1); contains InterPro domain UMUC-like DNA-repair protein; (InterPro:IPR001126)
clusterVis(4)## Using gene as id variables
clusterVis_PCA(4)
#clusterVis_line(4)
#clusterGO(4)
y <- genesInClust(4, data.val2, annotation)## [1] 143kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc01g005280 & AT1G14820 & SEC14 cytosolic factor family protein / phosphoglyceride transfer family protein; similar to SEC14 cytosolic factor, putative / phosphoglyceride transfer protein, putative [Arabidopsis thaliana] (TAIR:AT1G01630.1); similar to Cellular retinaldehyde binding/alpha-tocopherol transport; Cellular retinaldehyde-binding/triple function, N-terminal [Medicago truncatula] (GB:ABE80207.1); contains InterPro domain Phosphatidylinositol transfer protein-like, N-terminal; (InterPro:IPR011074); contains InterPro domain Cellular retinaldehyde-binding/triple function, C-terminal; (InterPro:IPR001251)\\
## Solyc01g005290 & AT1G14820 & SEC14 cytosolic factor family protein / phosphoglyceride transfer family protein; similar to SEC14 cytosolic factor, putative / phosphoglyceride transfer protein, putative [Arabidopsis thaliana] (TAIR:AT1G01630.1); similar to Cellular retinaldehyde binding/alpha-tocopherol transport; Cellular retinaldehyde-binding/triple function, N-terminal [Medicago truncatula] (GB:ABE80207.1); contains InterPro domain Phosphatidylinositol transfer protein-like, N-terminal; (InterPro:IPR011074); contains InterPro domain Cellular retinaldehyde-binding/triple function, C-terminal; (InterPro:IPR001251)\\
## Solyc01g006790 & NA & NA\\
## Solyc01g008980 & NA & NA\\
## Solyc01g014200 & NA & NA\\
## \addlinespace
## Solyc01g034150 & AT5G44740 & UMUC-like DNA repair family protein; similar to REV1 (Reversionless 1), damaged DNA binding / magnesium ion binding / nucleotidyltransferase [Arabidopsis thaliana] (TAIR:AT5G44750.1); similar to Os01g0757800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044297.1); similar to putative DNA polymerase [Oryza sativa (japonica cultivar-group)] (GB:BAD87579.1); contains InterPro domain UMUC-like DNA-repair protein; (InterPro:IPR001126)\\
## Solyc01g060200 & NA & NA\\
## Solyc01g068510 & NA & NA\\
## Solyc01g079080 & NA & NA\\
## Solyc01g087050 & NA & NA\\
## \addlinespace
## Solyc01g087340 & NA & NA\\
## Solyc01g087990 & AT5G13790 & AGL15 (AGAMOUS-Like 15) is a member of the MADS domain family of regulatory factors. Although AGL15 is preferentially expressed during embryogenesis, AGL15 is also expressed in leaf primordia, shoot apical meristems and young floral buds, suggesting that AGL15 may play a role during post-germinative development. Transgenic plants that ectopically express AGL15 show delays in the transition to flowering, perianth abscission and senescence and fruit and seed maturation.\\
## Solyc01g090210 & NA & NA\\
## Solyc01g090840 & NA & NA\\
## Solyc01g097080 & NA & NA\\
## \addlinespace
## Solyc01g098240 & NA & NA\\
## Solyc01g099200 & AT1G55020 & lipoxygenase, a defense gene conferring resistance Xanthomonas campestris\\
## Solyc01g099210 & AT1G55020 & lipoxygenase, a defense gene conferring resistance Xanthomonas campestris\\
## Solyc01g102640 & NA & NA\\
## Solyc01g102840 & NA & NA\\
## \addlinespace
## Solyc01g105180 & NA & NA\\
## Solyc01g105880 & NA & NA\\
## Solyc01g107680 & NA & NA\\
## Solyc02g021260 & NA & NA\\
## Solyc02g064990 & NA & NA\\
## \addlinespace
## Solyc02g065490 & NA & NA\\
## Solyc02g067710 & NA & NA\\
## Solyc02g068660 & NA & NA\\
## Solyc02g071750 & AT4G18930 & cyclic phosphodiesterase; Identical to Cyclic phosphodiesterase (EC 3.1.4.-) (CPDase) [Arabidopsis Thaliana] (GB:O04147); similar to cyclic phosphodiesterase, putative [Arabidopsis thaliana] (TAIR:AT4G18940.1); similar to Appr>p cyclic nucleotide phosphodiesterase [Medicago truncatula] (GB:ABE80637.1); contains InterPro domain Appr>p cyclic nucleotide phosphodiesterase; (InterPro:IPR009097); contains InterPro domain 2 , 3 cyclic phosphodiesterase, plant; (InterPro:IPR012386)\\
## Solyc02g082600 & NA & NA\\
## \addlinespace
## Solyc02g083120 & NA & NA\\
## Solyc02g083680 & AT2G17820 & Encodes a member of the histidine kinase family.\\
## Solyc02g086270 & NA & NA\\
## Solyc02g086720 & NA & NA\\
## Solyc02g093230 & AT4G34050 & caffeoyl-CoA 3-O-methyltransferase, putative; Identical to Probable caffeoyl-CoA O-methyltransferase At4g34050 (EC 2.1.1.104) (Trans-caffeoyl-CoA 3-O-methyltransferase) (CCoAMT) (CCoAOMT) [Arabidopsis Thaliana] (GB:O49499;GB:Q8L989); similar to caffeoyl-CoA 3-O-methyltransferase, putative [Arabidopsis thaliana] (TAIR:AT4G26220.1); similar to putative caffeoyl-CoA O-methyltransferase protein [Isatis tinctoria] (GB:AAZ95245.1); contains InterPro domain O-methyltransferase, family 3; (InterPro:IPR002935)\\
## \addlinespace
## Solyc02g093270 & AT4G34050 & caffeoyl-CoA 3-O-methyltransferase, putative; Identical to Probable caffeoyl-CoA O-methyltransferase At4g34050 (EC 2.1.1.104) (Trans-caffeoyl-CoA 3-O-methyltransferase) (CCoAMT) (CCoAOMT) [Arabidopsis Thaliana] (GB:O49499;GB:Q8L989); similar to caffeoyl-CoA 3-O-methyltransferase, putative [Arabidopsis thaliana] (TAIR:AT4G26220.1); similar to putative caffeoyl-CoA O-methyltransferase protein [Isatis tinctoria] (GB:AAZ95245.1); contains InterPro domain O-methyltransferase, family 3; (InterPro:IPR002935)\\
## Solyc02g094050 & NA & NA\\
## Solyc03g006600 & NA & NA\\
## Solyc03g025640 & AT5G52400 & member of CYP715A\\
## Solyc03g031430 & AT1G21840 & Encodes a urease accessory protein which is essential for the activation of plant urease.\\
## \addlinespace
## Solyc03g044420 & NA & NA\\
## Solyc03g045000 & AT2G23090 & similar to hypothetical protein [Cicer arietinum] (GB:CAA10129.1)\\
## Solyc03g053000 & NA & NA\\
## Solyc03g078330 & NA & NA\\
## Solyc03g095510 & AT3G08720 & Encodes a ribosomal-protein S6 kinase. Gene expression is induced by cold and salt (NaCl). Activation of AtS6k is regulated by 1-naphthylacetic acid and kinetin, at least in part, via a lipid kinase-dependent pathway. Phosphorylates specifically mammalian and plant S6 at 25 degrees C but not at 37 degrees C. Involved in translational up-regulation of ribosomal proteins.\\
## \addlinespace
## Solyc03g097120 & NA & NA\\
## Solyc03g097720 & NA & NA\\
## Solyc03g097730 & NA & NA\\
## Solyc03g111600 & AT3G48425 & endonuclease/exonuclease/phosphatase family protein; similar to ARP (apurinic endonuclease-redox protein) [Arabidopsis thaliana] (TAIR:AT2G41460.1); similar to putative AP endonuclease [Sorghum bicolor] (GB:AAL73527.2); similar to Os12g0279600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066573.1); contains InterPro domain Exodeoxyribonuclease III xth; (InterPro:IPR004808); contains InterPro domain Endonuclease/exonuclease/phosphatase; (InterPro:IPR005135)\\
## Solyc03g113950 & NA & NA\\
## \addlinespace
## Solyc03g114350 & NA & NA\\
## Solyc03g115160 & NA & NA\\
## Solyc03g116360 & AT5G19420 & zinc finger protein, putative / regulator of chromosome condensation (RCC1) family protein; similar to zinc finger protein, putative / regulator of chromosome condensation (RCC1) family protein [Arabidopsis thaliana] (TAIR:AT5G42140.1); similar to zinc finger protein (PRAF1) / regulator of chromosome condensation (RCC1) family protein [Arabidopsis thaliana] (TAIR:AT1G76950.1); similar to Ran GTPase binding / chromatin binding / zinc ion binding [Arabidopsis thaliana] (TAIR:AT5G12350.1); similar to Pleckstrin-like; Regulator of chromosome condensation/beta-lactamase-inhibitor protein II; Zinc finger, FYVE/PHD-type [Medicago truncatula] (GB:ABE89832.1); similar to unknown prtein [Oryza sativa (japonica cultivar-group)] (GB:AAT77332.1); similar to putative ZR1 protein [Oryza sativa (japonica cultivar-group)] (GB:BAD87854.1); contains InterPro domain Zinc finger, FYVE/PHD-type; (InterPro:IPR011011); contains InterPro domain Regulator of chromosome condensation, RCC1; (InterPro:IPR000408); contains InterPro domain Regulator of chromosome condensation/beta-lactamase-inhibitor protein II; (InterPro:IPR009091); contains InterPro domain Disease resistance/zinc finger/chromosome condensation-like region; (InterPro:IPR013591); contains InterPro domain Zinc finger, FYVE-type; (InterPro:IPR000306)\\
## Solyc03g116720 & AT1G80100 & AHP6 lacks the conserved histidine residue (Asn83 in AHP6b), which is required for phosphotransfer, present in the other AHPs. AHP6 does not appear to have phosphotransfer activity. Acts as an inhibitor of cytokinin signaling by interacting with the phosphorelay machinery. Expressed in developing protoxylem and associated pericycle cell files. Negative regulator of cytokinin signaling. Expression is down-regulated by cytokinins. There are two alternatively spliced genes for this locus, AHP6a and AHP6b, differing in the length of the first exon. In ahp6-2 seedlings, only the AHP6a transcript is present.\\
## Solyc03g120840 & NA & NA\\
## \addlinespace
## Solyc04g007050 & NA & NA\\
## Solyc04g007320 & NA & NA\\
## Solyc04g007350 & NA & NA\\
## Solyc04g007940 & NA & NA\\
## Solyc04g018140 & NA & NA\\
## \addlinespace
## Solyc04g025610 & NA & NA\\
## Solyc04g076630 & AT1G09890 & lyase; similar to lyase [Arabidopsis thaliana] (TAIR:AT1G09910.1); similar to Os08g0554100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062464.1); similar to putative MYST1 [Oryza sativa (japonica cultivar-group)] (GB:BAD10227.1); contains InterPro domain Rhamnogalacturonate lyase; (InterPro:IPR010325)\\
## Solyc04g076750 & AT1G09930 & oligopeptide transporter\\
## Solyc04g077280 & AT4G27290 & S-locus protein kinase, putative; similar to ARK1 (A. THALIANA RECEPTOR KINASE I), kinase [Arabidopsis thaliana] (TAIR:AT1G65790.1); similar to S-locus protein kinase, putative [Arabidopsis thaliana] (TAIR:AT4G27300.1); similar to ARK3 (Arabidopsis Receptor Kinase 3), kinase [Arabidopsis thaliana] (TAIR:AT4G21380.1); similar to Protein kinase; S-locus glycoprotein; Curculin-like (mannose-binding) lectin; Apple-like [Medicago truncatula] (GB:ABE82224.1); similar to receptor kinase 5 [Brassica rapa] (GB:BAB69683.1); similar to EGF-like, subtype 2; S-locus glycoprotein; Curculin-like (mannose-binding) lectin; Apple-like; Serine/threonine protein kinase, active site [Medicago truncatula] (GB:ABE86763.1); contains InterPro domain Apple-like; (InterPro:IPR003609); contains InterPro domain S-locus glycoprotein; (InterPro:IPR000858); contains InterPro domain Curculin-like (mannose-binding) lectin; (InterPro:IPR001480); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain PAN-like, type 2; (InterPro:IPR013227); contains InterPro domain EGF-like, type 3; (InterPro:IPR000742); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc04g077860 & AT3G03990 & esterase/lipase/thioesterase family protein; similar to hydrolase, alpha/beta fold family protein [Arabidopsis thaliana] (TAIR:AT4G37470.1); similar to hydrolase [Platanus x acerifolia] (GB:CAJ91149.1); similar to Os03g0203200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049306.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073)\\
## \addlinespace
## Solyc04g078210 & NA & NA\\
## Solyc04g079700 & AT2G26490 & transducin family protein / WD-40 repeat family protein; similar to transducin family protein / WD-40 repeat family protein [Arabidopsis thaliana] (TAIR:AT4G34380.1); similar to putative WD repeat-protein [Oryza sativa (japonica cultivar-group)] (GB:AAP44704.1); similar to Os03g0738700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051213.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc04g079730 & AT5G42650 & Encodes a member of the cytochrome p450 CYP74 gene family that functions as an allene oxide synthase. This enzyme catalyzes dehydration of the hydroperoxide to an unstable allene oxide in the JA biosynthetic pathway. It shows a dual catalytic activity, the major one being a 13-AOS but also expressing a 9-AOS activity.\\
## Solyc04g080780 & NA & NA\\
## Solyc04g082170 & AT5G42250 & alcohol dehydrogenase, putative; similar to alcohol dehydrogenase, putative [Arabidopsis thaliana] (TAIR:AT4G22110.2); similar to alcohol dehydrogenase ADH [Lycopersicon esculentum] (GB:AAB33480.2); contains InterPro domain NAD-binding site; (InterPro:IPR000205); contains InterPro domain GroES-like; (InterPro:IPR011032); contains InterPro domain Alcohol dehydrogenase superfamily, zinc-containing; (InterPro:IPR002085); contains InterPro domain Alcohol dehydrogenase, zinc-binding; (InterPro:IPR013149); contains InterPro domain Alcohol dehydrogenase, zinc-containing; (InterPro:IPR002328); contains InterPro domain Alcohol dehydrogenase GroES-like; (InterPro:IPR013154)\\
## \addlinespace
## Solyc05g008580 & AT1G15110 & phosphatidyl serine synthase family protein; similar to Os01g0118300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001041859.1); similar to phosphatidylserine synthase [Dictyostelium discoideum AX4] (GB:XP_001134578.1); similar to Os05g0554400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056269.1); contains InterPro domain Phosphatidyl serine synthase; (InterPro:IPR004277)\\
## Solyc05g009130 & AT5G11730 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G25970.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:AAT77886.1); contains InterPro domain Protein of unknown function DUF266, plant; (InterPro:IPR004949)\\
## Solyc05g009770 & AT1G13290 & zinc finger (C2H2 type) family protein; similar to zinc finger (C2H2 type) protein (WIP2) [Arabidopsis thaliana] (TAIR:AT3G57670.1); similar to Zinc finger, C2H2-type [Medicago truncatula] (GB:ABE93767.1); contains InterPro domain Zinc finger, C2H2-type; (InterPro:IPR007087)\\
## Solyc05g013540 & NA & NA\\
## Solyc05g013810 & AT1G13130 & glycosyl hydrolase family 5 protein / cellulase family protein; similar to glycosyl hydrolase family 5 protein / cellulase family protein [Arabidopsis thaliana] (TAIR:AT3G26140.1); similar to H0510A06.1 [Oryza sativa (indica cultivar-group)] (GB:CAH67676.1); contains InterPro domain Glycoside hydrolase, family 5; (InterPro:IPR001547); contains InterPro domain Ricin B lectin; (InterPro:IPR000772); contains InterPro domain Ricin B-related lectin; (InterPro:IPR008997)\\
## \addlinespace
## Solyc05g014720 & NA & NA\\
## Solyc05g016640 & NA & NA\\
## Solyc05g016710 & NA & NA\\
## Solyc05g025820 & AT2G05940 & protein kinase, putative; similar to kinase [Arabidopsis thaliana] (TAIR:AT5G35580.1); similar to Avr9/Cf-9 induced kinase 1 [Nicotiana tabacum] (GB:AAP03880.2); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc05g043330 & AT2G04570 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT2G42990.1); similar to GDSL-motif lipase/hydrolase-like [Oryza sativa (japonica cultivar-group)] (GB:BAD22300.1); similar to Os06g0636700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058145.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## \addlinespace
## Solyc05g044580 & NA & NA\\
## Solyc05g047640 & AT4G00840 & zinc ion binding; similar to zinc finger (DHHC type) family protein [Arabidopsis thaliana] (TAIR:AT3G60800.1); similar to Zinc finger, DHHC-type [Medicago truncatula] (GB:ABE93522.1); contains InterPro domain Zinc finger, DHHC-type; (InterPro:IPR001594)\\
## Solyc05g048830 & AT3G61250 & Member of the R2R3 factor gene family.\\
## Solyc05g050840 & NA & NA\\
## Solyc05g055220 & NA & NA\\
## \addlinespace
## Solyc06g008600 & AT2G30580 & zinc finger (C3HC4-type RING finger) family protein; similar to zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] (TAIR:AT1G06770.1); similar to Zinc finger, C3HC4 type family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97766.1); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc06g035790 & AT4G00750 & dehydration-responsive family protein; similar to dehydration-responsive family protein [Arabidopsis thaliana] (TAIR:AT2G45750.1); similar to dehydration-responsive family protein [Arabidopsis thaliana] (TAIR:AT4G10440.1); similar to dehydration-responsive family protein [Arabidopsis thaliana] (TAIR:AT1G33170.1); similar to dehydration-responsive protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD67956.1); similar to Generic methyltransferase [Medicago truncatula] (GB:ABE86303.1); similar to Generic methyltransferase [Medicago truncatula] (GB:ABE88265.1); contains InterPro domain Protein of unknown function DUF248, methyltransferase putative; (InterPro:IPR004159); contains InterPro domain Generic methyltransferase; (InterPro:IPR001601)\\
## Solyc06g054480 & NA & NA\\
## Solyc06g063180 & NA & NA\\
## Solyc06g065630 & AT5G11320 & Belongs to the YUC gene family. Encodes a predicted flavin monooxygenase YUC4 involved in auxin biosynthesis and plant development.\\
## \addlinespace
## Solyc06g069240 & NA & NA\\
## Solyc06g072520 & NA & NA\\
## Solyc06g074000 & AT3G52500 & aspartyl protease family protein; similar to aspartyl protease family protein [Arabidopsis thaliana] (TAIR:AT4G16563.1); similar to aspartic protease [Fagopyrum esculentum] (GB:AAS48510.2); contains InterPro domain Peptidase A1, pepsin; (InterPro:IPR001461); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007)\\
## Solyc06g074320 & AT1G08320 & DNA binding; similar to bZIP family transcription factor [Arabidopsis thaliana] (TAIR:AT5G06839.1); similar to Os01g0859500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044868.1); similar to TGACG-sequence-specific DNA-binding protein TGA-2.1, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95838.1); similar to Os12g0152900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066179.1); contains InterPro domain bZIP transcription factor, bZIP_1; (InterPro:IPR011616); contains InterPro domain Basic-leucine zipper (bZIP) transcription factor; (InterPro:IPR004827)\\
## Solyc06g074910 & NA & NA\\
## \addlinespace
## Solyc06g074930 & NA & NA\\
## Solyc07g008020 & NA & NA\\
## Solyc07g008220 & NA & NA\\
## Solyc07g021030 & NA & NA\\
## Solyc07g040660 & NA & NA\\
## \addlinespace
## Solyc07g043550 & AT1G30620 & encodes a type-II membrane protein that catalyzes 4-epimerization of UDP-D-Xylose to UDP-L-Arabinose in vitro, the nucleotide sugar used by glycosyltransferases in the arabinosylation of cell wall polysaccharides and wall-resident proteoglycans.\\
## Solyc07g045450 & NA & NA\\
## Solyc07g045570 & NA & NA\\
## Solyc07g052640 & AT4G15240 & fringe-related protein; similar to fringe-related protein [Arabidopsis thaliana] (TAIR:AT1G05280.1); similar to hypothetical protein [Trifolium pratense] (GB:BAE71200.1); similar to Os08g0137300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060955.1); contains InterPro domain Protein of unknown function DUF604; (InterPro:IPR006740); contains InterPro domain DNA-binding TFAR19-related protein; (InterPro:IPR002836)\\
## Solyc07g055820 & NA & NA\\
## \addlinespace
## Solyc07g065960 & NA & NA\\
## Solyc08g006730 & NA & NA\\
## Solyc08g008310 & AT4G23850 & long-chain-fatty-acid--CoA ligase / long-chain acyl-CoA synthetase; similar to long-chain-fatty-acid--CoA ligase, putative / long-chain acyl-CoA synthetase, putative [Arabidopsis thaliana] (TAIR:AT4G11030.1); similar to LACS2 (LONG-CHAIN ACYL-COA SYNTHETASE 2) [Arabidopsis thaliana] (TAIR:AT1G49430.1); similar to long-chain-fatty-acid--CoA ligase, putative / long-chain acyl-CoA synthetase, putative [Arabidopsis thaliana] (TAIR:AT1G64400.1); similar to acyl-CoA synthetase [Brassica napus] (GB:CAA64327.1); similar to ACS-like protein [Gossypium hirsutum] (GB:ABA00145.1); similar to ACS-like protein [Gossypium hirsutum] (GB:ABA00144.1); contains InterPro domain AMP-dependent synthetase and ligase; (InterPro:IPR000873)\\
## Solyc08g015820 & NA & NA\\
## Solyc08g016190 & NA & NA\\
## \addlinespace
## Solyc08g016440 & NA & NA\\
## Solyc08g022060 & NA & NA\\
## Solyc08g042000 & AT5G11110 & Encodes a protein with putative sucrose-phosphate synthase activity.\\
## Solyc08g065840 & NA & NA\\
## Solyc08g077170 & AT1G32450 & proton-dependent oligopeptide transport (POT) family protein; similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT5G19640.1); similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT4G21680.1); similar to TGF-beta receptor, type I/II extracellular re (GB:ABD32535.1); similar to TGF-beta receptor, type I/II extracellular re (GB:ABE93051.1); similar to transporter, major facilitator family, putative [Medicago truncatula] (GB:ABE88005.1); contains InterPro domain TGF-beta receptor, type I/II extracellular region; (InterPro:IPR000109)\\
## \addlinespace
## Solyc08g078590 & NA & NA\\
## Solyc08g078970 & NA & NA\\
## Solyc09g009250 & NA & NA\\
## Solyc09g060040 & NA & NA\\
## Solyc09g060100 & AT4G13150 & unknown protein\\
## \addlinespace
## Solyc09g065250 & NA & NA\\
## Solyc09g074550 & NA & NA\\
## Solyc09g074700 & NA & NA\\
## Solyc09g074980 & AT4G02460 & DNA mismatch repair protein, putative; similar to ATMLH1 (Arabidopsis thaliana MutL-homologue 1) [Arabidopsis thaliana] (TAIR:AT4G09140.1); similar to ATP-binding re (GB:ABE85041.1); similar to Os02g0592300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047292.1); contains InterPro domain DNA mismatch repair protein, C-terminal; (InterPro:IPR013507); contains InterPro domain ATP-binding region, ATPase-like; (InterPro:IPR003594); contains InterPro domain DNA mismatch repair protein; (InterPro:IPR002099)\\
## Solyc09g075260 & AT1G02816 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G02370.1); similar to Os05g0362300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055314.1); similar to Protein of unknown function, DUF538 [Oryza sativa (japonica cultivar-group)] (GB:AAX95409.1); similar to Os05g0362500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055315.1); contains InterPro domain Protein of unknown function DUF538; (InterPro:IPR007493)\\
## \addlinespace
## Solyc09g091390 & NA & NA\\
## Solyc09g097800 & NA & NA\\
## Solyc10g007220 & NA & NA\\
## Solyc10g007800 & NA & NA\\
## Solyc10g052470 & AT4G39250 & DNA binding / transcription factor; similar to MEE3 (maternal effect embryo arrest 3), DNA binding / transcription factor [Arabidopsis thaliana] (TAIR:AT2G21650.1); similar to MYB transcription factor MYB142 [Glycine max] (GB:ABH02867.1); contains InterPro domain Homeodomain-related; (InterPro:IPR012287); contains InterPro domain Homeodomain-like; (InterPro:IPR009057); contains InterPro domain Myb, DNA-binding; (InterPro:IPR001005)\\
## \addlinespace
## Solyc10g076790 & AT2G38120 & Encodes an auxin influx transporter. AUX1 resides at the apical plasma membrane of protophloem cells and at highly dynamic subpopulations of Golgi apparatus and endosomes in all cell types. AUX1 action in the lateral root cap and/or epidermal cells influences lateral root initiation and positioning.\\
## Solyc10g086750 & NA & NA\\
## Solyc11g032130 & AT1G76690 & Encodes one of two closely related 12-oxophytodienoic acid reductases.\\
## Solyc11g040270 & NA & NA\\
## Solyc11g044980 & NA & NA\\
## \addlinespace
## Solyc11g063530 & NA & NA\\
## Solyc11g069890 & NA & NA\\
## Solyc12g009050 & NA & NA\\
## Solyc12g009420 & NA & NA\\
## Solyc12g040820 & NA & NA\\
## \addlinespace
## Solyc12g042340 & NA & NA\\
## Solyc12g056730 & AT1G34110 & leucine-rich repeat transmembrane protein kinase, putative; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT3G24240.1); similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT5G48940.1); similar to ATP binding / protein serine/threonine kinase [Arabidopsis thaliana] (TAIR:AT5G56040.2); similar to putative Receptor-like protein kinase precursor [Oryza sativa (japonica cultivar-group)] (GB:BAD46328.1); similar to receptor protein kinase [Pinus sylvestris] (GB:CAC20842.1); similar to CLAVATA-like kinase [Triticum aestivum] (GB:CAJ19346.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, typical subtype; (InterPro:IPR003591); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc12g096010 & AT5G12000 & kinase; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G26150.1); similar to kinase [Arabidopsis thaliana] (TAIR:AT2G24370.1); similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT4G31230.1); similar to Protein kinase; UspA [Medicago truncatula] (GB:ABE79207.1); similar to Protein kinase; UspA [Medicago truncatula] (GB:ABE79205.1); similar to serine threonine kinase 1 [Zea mays] (GB:AAK73111.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain UspA; (InterPro:IPR006016); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## \bottomrule
## \end{tabular}Cluster 5
High in both cmbr and bmbr, leaflets and true marginal blastozone.
Included:
Solyc05g051380 & AT5G10510 & AIL6 (AINTEGUMENTA-LIKE 6); DNA binding / transcription factor; similar to AIL7 (AINTEGUMENTA-LIKE 7), DNA binding / transcription factor [Arabidopsis thaliana] (TAIR:AT5G65510.1); similar to 117M18_31 [Brassica rapa] (GB:AAZ66950.1); contains InterPro domain Pathogenesis-related transcriptional factor and ERF; (InterPro:IPR001471)
Solyc05g041220 & AT5G35770 & A recessive mutation in the Arabidopsis STERILE APETALA (SAP) causes severe aberrations in inflorescence and flower and ovule development.
clusterVis(5)## Using gene as id variables
clusterVis_PCA(5)
clusterVis_line(5)## Using gene, curated as id variables
#clusterGO(5)
y <- genesInClust(5, data.val2, annotation)## [1] 108kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g007200 & AT2G17480 & A member of a large family of seven-transmembrane domain proteins specific to plants, homologs of the barley mildew resistance locus o (MLO) protein. The Arabidopsis genome contains 15 genes encoding MLO proteins, with localization in plasma membrane. Phylogenetic analysis revealed four clades of closely-related AtMLO genes. ATMLO8 belongs to the clade III, with AtMLO5, AtMLO7, AtMLO9, and AtMLO10. The gene is expressed during seedling growth, in cotyledons and hypocotyl, and in fruit abscission zone, as shown by GUS activity patterns. The expression of several phylogenetically closely-related AtMLO genes showed similar or overlapping tissue specificity and analogous responsiveness to external stimuli, suggesting functional redundancy, co-function, or antagonistic function(s).\\
## Solyc00g007590 & NA & NA\\
## Solyc00g311230 & NA & NA\\
## Solyc01g005300 & AT1G68050 & flavin-binding kelch domain F box protein, is clock-controlled, regulates transition to flowering\\
## Solyc01g014470 & NA & NA\\
## \addlinespace
## Solyc01g067030 & NA & NA\\
## Solyc01g079260 & NA & NA\\
## Solyc01g079980 & AT1G03220 & extracellular dermal glycoprotein, putative / EDGP, putative; similar to extracellular dermal glycoprotein, putative / EDGP, putative [Arabidopsis thaliana] (TAIR:AT1G03230.1); similar to putative xyloglucanase inhibitor [Solanum tuberosum] (GB:AAP84703.1); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007)\\
## Solyc01g088130 & NA & NA\\
## Solyc01g091140 & NA & NA\\
## \addlinespace
## Solyc01g104400 & AT2G02850 & Encodes plantacyanin one of blue copper proteins. Involved in anther development and pollination. Expressed in the transmitting tract of the pistil.\\
## Solyc01g105940 & AT4G16740 & Monoterpene synthase, catalyzes the formation of the acyclic monoterpene (E)-beta-ocimene in response to wounding or treatment with jasmonic acid.\\
## Solyc01g109180 & AT1G49430 & Encodes a long chain acyl-CoA synthetase that catalyzes the synthesis of omega-hydroxy fatty acyl-CoA intermediates in the pathway to cutin synthesis.\\
## Solyc02g021340 & AT4G38260 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G20740.1); similar to H0409D10.8 [Oryza sativa (indica cultivar-group)] (GB:CAH66750.1); similar to Os09g0323500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062871.1); contains InterPro domain Protein of unknown function DUF833; (InterPro:IPR008551)\\
## Solyc02g021410 & NA & NA\\
## \addlinespace
## Solyc02g030450 & AT5G45160 & root hair defective 3 GTP-binding (RHD3) family protein; similar to RHD3 (ROOT HAIR DEFECTIVE 3) [Arabidopsis thaliana] (TAIR:AT3G13870.1); similar to root hair defective 3 GTP-binding (RHD3) family protein [Arabidopsis thaliana] (TAIR:AT1G72960.1); similar to root hair defective 3 GTP-binding protein [Triticum aestivum] (GB:AAS67855.2); similar to Os01g0575000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043388.1); similar to Os12g0604600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067218.1); contains InterPro domain Root hair defective 3 GTP-binding; (InterPro:IPR008803)\\
## Solyc02g032210 & NA & NA\\
## Solyc02g062040 & AT4G35840 & zinc finger (C3HC4-type RING finger) family protein; Identical to RING-H2 finger protein ATL4M (NEP1-interacting protein 1) (ATL4M) [Arabidopsis Thaliana] (GB:Q8GT75;GB:Q8GXV3;GB:Q9SZT2); similar to zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] (TAIR:AT2G17730.1); similar to Os10g0544600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065202.1); similar to zinc finger protein [Fagus sylvatica] (GB:CAE54083.1); similar to putative NEP1-interacting protein 2 [Oryza sativa (japonica cultivar-group)] (GB:BAC79837.1); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc02g069390 & NA & NA\\
## Solyc02g071980 & NA & NA\\
## \addlinespace
## Solyc02g072050 & AT2G47010 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G17030.1); similar to hypothetical protein MtrDRAFT_AC136840g22v1 [Medicago truncatula] (GB:ABE82418.1)\\
## Solyc02g079050 & AT4G21530 & nucleotide binding; similar to D-erythro-sphingosine kinase/ diacylglycerol kinase [Arabidopsis thaliana] (TAIR:AT4G21540.1); similar to transducin family protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD19203.1); similar to Os02g0785900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048331.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc02g079140 & NA & NA\\
## Solyc02g082170 & AT1G30840 & Member of a family of proteins related to PUP1, a purine transporter. May be involved in the transport of purine and purine derivatives such as cytokinins, across the plasma membrane.\\
## Solyc02g086210 & NA & NA\\
## \addlinespace
## Solyc02g087600 & NA & NA\\
## Solyc02g088530 & NA & NA\\
## Solyc02g089900 & NA & NA\\
## Solyc02g090720 & NA & NA\\
## Solyc02g091310 & NA & NA\\
## \addlinespace
## Solyc02g092060 & NA & NA\\
## Solyc02g093280 & NA & NA\\
## Solyc02g093480 & AT3G27470 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G67850.2); similar to Protein of unknown function DUF707 [Medicago truncatula] (GB:ABE91787.1); contains InterPro domain Protein of unknown function DUF707; (InterPro:IPR007877)\\
## Solyc03g005300 & AT3G22950 & A member of ARF GTPase family. A thaliana has 21 members of this family, known to be essential for vesicle coating and uncoating and functions in GTP-binding. Gene encoding ADP-ribosylation factor and similar to ADP-ribosylation factor GB:P91924 (Dugesia japonica), other ARFs and ARF-like proteins.\\
## Solyc03g006810 & AT5G51890 & encodes peroxidase involved in the lignification of tracheary elements (TE) in roots\\
## \addlinespace
## Solyc03g007060 & NA & NA\\
## Solyc03g007290 & AT5G51460 & homologous to the C-terminal part of microbial trehalose-6-phosphate phosphatases\\
## Solyc03g007710 & NA & NA\\
## Solyc03g033550 & NA & NA\\
## Solyc03g034010 & NA & NA\\
## \addlinespace
## Solyc03g051940 & NA & NA\\
## Solyc03g097530 & NA & NA\\
## Solyc03g110930 & NA & NA\\
## Solyc03g120420 & NA & NA\\
## Solyc03g123400 & NA & NA\\
## \addlinespace
## Solyc04g010320 & NA & NA\\
## Solyc04g010330 & NA & NA\\
## Solyc04g080970 & NA & NA\\
## Solyc04g081510 & AT1G30755 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G34320.1); similar to Protein of unknown function DUF668 [Medicago truncatula] (GB:ABE81373.1); contains InterPro domain Protein of unknown function DUF668; (InterPro:IPR007700)\\
## Solyc04g081930 & AT1G20270 & oxidoreductase, 2OG-Fe(II) oxygenase family protein; similar to oxidoreductase, 2OG-Fe(II) oxygenase family protein [Arabidopsis thaliana] (TAIR:AT2G17720.1); similar to putative prolyl 4-hydroxylase [Oryza sativa (japonica cultivar-group)] (GB:BAD23054.1); contains InterPro domain Prolyl 4-hydroxylase, alpha subunit; (InterPro:IPR006620); contains InterPro domain 2OG-Fe(II) oxygenase; (InterPro:IPR005123)\\
## \addlinespace
## Solyc05g041220 & AT5G35770 & A recessive mutation in the Arabidopsis STERILE APETALA (SAP) causes severe aberrations in inflorescence and flower and ovule development.\\
## Solyc05g046320 & NA & NA\\
## Solyc05g051360 & NA & NA\\
## Solyc05g051380 & AT5G10510 & AIL6 (AINTEGUMENTA-LIKE 6); DNA binding / transcription factor; similar to AIL7 (AINTEGUMENTA-LIKE 7), DNA binding / transcription factor [Arabidopsis thaliana] (TAIR:AT5G65510.1); similar to 117M18_31 [Brassica rapa] (GB:AAZ66950.1); contains InterPro domain Pathogenesis-related transcriptional factor and ERF; (InterPro:IPR001471)\\
## Solyc05g052850 & NA & NA\\
## \addlinespace
## Solyc06g008100 & AT3G04300 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G10300.1); similar to Cupin, RmlC-type [Medicago truncatula] (GB:ABE82642.1); contains InterPro domain Protein of unknown function DUF861, cupin_3; (InterPro:IPR008579); contains InterPro domain Cupin, RmlC-type; (InterPro:IPR011051)\\
## Solyc06g009330 & AT4G01840 & Encodes AtTPK5, a member of the Arabidopsis thaliana K+ channel family of AtTPK/KCO proteins. AtTPK5 is targeted to the vacuolar membrane. May form homomeric ion channels in vivo.\\
## Solyc06g034140 & NA & NA\\
## Solyc06g053690 & AT5G14600 & similar to OSJNBb0033P05.9 [Oryza sativa (japonica cultivar-group)] (GB:CAE05670.3); similar to PREDICTED: similar to MGC53312 protein [Gallus gallus] (GB:XP_421386.2); similar to OSJNBb0026L04.5 [Oryza sativa (japonica cultivar-group)] (GB:CAE01500.2); contains InterPro domain SAM (and some other nucleotide) binding motif; (InterPro:IPR000051)\\
## Solyc06g053930 & AT4G14640 & encodes a divergent member of calmodulin, which is an EF-hand family of Ca2+-binding proteins. This gene is expressed in leaves, flowers and siliques. The gene functionally complements yeast calmodulin 1 (CAM1). Also the protein does not form formed a complex with a basic amphiphilic helical peptide in the presence of Ca2+ in vitro. Authors suggest that this gene may represent a Ca2+-binding sensor protein that interacts with a more limited set of target proteins than do more conventional CaM isoforms.\\
## \addlinespace
## Solyc06g054580 & NA & NA\\
## Solyc06g060770 & AT5G47435 & formyltetrahydrofolate deformylase, putative; similar to formyltetrahydrofolate deformylase, putative [Arabidopsis thaliana] (TAIR:AT4G17360.1); similar to formyltetrahydrofolate deformylase, putative [Brassica oleracea] (GB:ABD64983.1); contains InterPro domain Formyltetrahydrofolate deformylase; (InterPro:IPR004810); contains InterPro domain Formyl transferase, N-terminal; (InterPro:IPR002376)\\
## Solyc06g065380 & AT4G09570 & Encodes a member of Calcium Dependent Protein Kinase (CDPK) gene family.\\
## Solyc06g069250 & NA & NA\\
## Solyc07g025390 & AT4G33380 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G04555.1); similar to Os02g0761600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048198.1); similar to Os06g0214100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057130.1); similar to unnamed protein product [Ostreococcus tauri] (GB:CAL57590.1)\\
## \addlinespace
## Solyc07g041210 & AT5G13640 & arabidopsis phospholipid:diacylglycerol acyltransferase (PDAT)\\
## Solyc07g044750 & AT1G30540 & ATPase, BadF/BadG/BcrA/BcrD-type family; similar to Os09g0133700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062632.1); similar to hypothetical protein DDBDRAFT_0186012 [Dictyostelium discoideum AX4] (GB:XP_638627.1); similar to Os07g0147700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058888.1); contains InterPro domain ATPase, BadF/BadG/BcrA/BcrD type; (InterPro:IPR002731)\\
## Solyc07g045320 & NA & NA\\
## Solyc07g045550 & AT5G35770 & A recessive mutation in the Arabidopsis STERILE APETALA (SAP) causes severe aberrations in inflorescence and flower and ovule development.\\
## Solyc07g054440 & AT1G03520 & glycosyltransferase family 14 protein / core-2/I-branching enzyme family protein; similar to glycosyltransferase family 14 protein / core-2/I-branching enzyme family protein [Arabidopsis thaliana] (TAIR:AT4G03340.1); similar to Os08g0143500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060977.1); similar to glycosyl transferase family 14 protein [Musa balbisiana] (GB:ABF70128.1); contains InterPro domain Transglutaminase, C-terminal; (InterPro:IPR008958); contains InterPro domain Glycosyl transferase, family 14; (InterPro:IPR003406)\\
## \addlinespace
## Solyc07g062890 & AT5G53940 & yippee family protein; Identical to Protein yippee-like At5g53940 [Arabidopsis Thaliana] (GB:Q9FN32); similar to yippee family protein [Arabidopsis thaliana] (TAIR:AT2G40110.1); similar to Protein yippee-like (GB:P59234); contains InterPro domain Yippee-like protein; (InterPro:IPR004910)\\
## Solyc07g063180 & NA & NA\\
## Solyc08g006700 & AT5G10810 & enhancer of rudimentary homolog ATER\\
## Solyc08g016160 & NA & NA\\
## Solyc08g036570 & AT5G14070 & glutaredoxin family protein; Identical to Glutaredoxin-C8 (AtGrxC8) (GRXC8) [Arabidopsis Thaliana] (GB:Q8LF89;GB:Q9FMU3); similar to ROXY1, thiol-disulfide exchange intermediate [Arabidopsis thaliana] (TAIR:AT3G02000.1); similar to glutaredoxin family protein [Musa acuminata] (GB:ABF69994.1); similar to Os04g0393500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052649.1); similar to Os02g0512400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046942.1); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Glutaredoxin; (InterPro:IPR002109); contains InterPro domain Thioredoxin fold; (InterPro:IPR012335); contains InterPro domain Glutaredoxin-like, plant II; (InterPro:IPR011905)\\
## \addlinespace
## Solyc08g062670 & AT4G33080 & kinase; similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT2G19400.1); similar to protein kinase [Raphanus sativus] (GB:BAC76895.1); similar to protein kinase [Spinacia oleracea] (GB:CAA82991.1); similar to protein kinase [Raphanus sativus] (GB:BAC76896.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc08g067440 & AT5G11340 & GCN5-related N-acetyltransferase (GNAT) family protein; similar to GCN5-related N-acetyltransferase (GNAT) family protein [Arabidopsis thaliana] (TAIR:AT5G16800.1); similar to Mak3 protein-like protein [Oryza sativa (japonica cultivar-group)] (GB:BAD52531.1); similar to Os01g0610400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043544.1); contains InterPro domain GCN5-related N-acetyltransferase; (InterPro:IPR000182)\\
## Solyc08g078990 & NA & NA\\
## Solyc08g081690 & AT1G64060 & Interacts with AtrbohD gene to fine tune the spatial control of ROI production and hypersensitive response to cell in and around infection site.\\
## Solyc08g082920 & AT5G42000 & ORMDL family protein; similar to ORMDL family protein [Arabidopsis thaliana] (TAIR:AT1G01230.1); similar to Os02g0673600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047715.1); similar to unknown [Narcissus pseudonarcissus] (GB:AAL69388.1); similar to OSIGBa0103M18.2 [Oryza sativa (indica cultivar-group)] (GB:CAH66850.1); contains InterPro domain ORMDL; (InterPro:IPR007203)\\
## \addlinespace
## Solyc09g005110 & AT4G33070 & pyruvate decarboxylase, putative; similar to PDC3 (PYRUVATE DECARBOXYLASE-3), pyruvate decarboxylase [Arabidopsis thaliana] (TAIR:AT5G01330.1); similar to PDC2 (PYRUVATE DECARBOXYLASE-2), pyruvate decarboxylase [Arabidopsis thaliana] (TAIR:AT5G54960.1); similar to pyruvate decarboxylase, putative [Arabidopsis thaliana] (TAIR:AT5G01320.1); similar to pyruvate decarboxylase [Fragaria x ananassa] (GB:AAL37492.1); similar to pyruvate decarboxylase [Dianthus caryophyllus] (GB:AAP96920.1); similar to pyruvate decarboxylase 1 [Lotus corniculatus] (GB:AAO72533.1); contains InterPro domain Thiamine pyrophosphate enzyme, N-terminal TPP binding region; (InterPro:IPR012001); contains InterPro domain Thiamine pyrophosphate enzyme, central region; (InterPro:IPR012000); contains InterPro domain Pyruvate decarboxylase/indolepyruvate decarboxylase; (InterPro:IPR012110); contains InterPro domain Thiamine pyrophosphate enzyme, C-terminal TPP-binding; (InterPro:IPR011766)\\
## Solyc09g007040 & AT3G53360 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G39530.1); similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G03580.1); similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G13650.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABE78309.1); similar to Os06g0506100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057720.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc09g008680 & NA & NA\\
## Solyc09g009580 & NA & NA\\
## Solyc09g031900 & NA & NA\\
## \addlinespace
## Solyc09g058980 & NA & NA\\
## Solyc09g075100 & AT3G62810 & complex 1 family protein / LVR family protein; similar to Complex 1 LYR protein [Medicago truncatula] (GB:ABE84987.1); contains InterPro domain Complex 1 LYR protein; (InterPro:IPR008011)\\
## Solyc09g091960 & NA & NA\\
## Solyc09g097930 & NA & NA\\
## Solyc10g008250 & NA & NA\\
## \addlinespace
## Solyc10g024420 & AT3G60160 & member of MRP subfamily\\
## Solyc10g074520 & AT2G17980 & member of SLY1 Gene Family\\
## Solyc10g075080 & NA & NA\\
## Solyc10g081050 & AT1G67660 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G13810.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD05466.1); contains domain no description (G3D.3.90.320.10); contains domain ALPHA/BETA HYDROLASE RELATED (PTHR10992:SF3); contains domain ALPHA/BETA HYDROLASE RELATED (PTHR10992); contains domain Restriction endonuclease-like (SSF52980)\\
## Solyc10g081230 & NA & NA\\
## \addlinespace
## Solyc10g081700 & NA & NA\\
## Solyc10g085750 & AT2G36660 & polyadenylate-binding protein, putative / PABP, putative. Member of the class III family of PABP proteins.\\
## Solyc11g007650 & NA & NA\\
## Solyc11g065890 & AT3G57650 & Encodes an endoplasmic reticulum localized protein with lysophosphatidyl acyltransferase activity.\\
## Solyc11g072510 & AT5G58490 & cinnamoyl-CoA reductase family; similar to cinnamoyl-CoA reductase family [Arabidopsis thaliana] (TAIR:AT2G02400.1); similar to NmrA-like family protein [Solanum demissum] (GB:AAT39306.1); contains InterPro domain NAD-dependent epimerase/dehydratase; (InterPro:IPR001509)\\
## \addlinespace
## Solyc11g073110 & NA & NA\\
## Solyc12g009850 & NA & NA\\
## Solyc12g038600 & NA & NA\\
## Solyc12g045030 & AT3G55310 & oxidoreductase; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT3G55290.2); similar to putative short-chain type alcohol dehydrogenase [Solanum tuberosum] (GB:AAN32641.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc12g055710 & NA & NA\\
## \addlinespace
## Solyc12g056770 & AT1G71790 & F-actin capping protein beta subunit family protein; Identical to Probable F-actin capping protein subunit beta (CapZ-beta) [Arabidopsis Thaliana] (GB:Q9M9G7); similar to subunit of heterodimeric actin capping protein cap32/34 [Dictyostelium discoideum AX4] (GB:XP_647630.1); similar to Os03g0381200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050240.1); contains InterPro domain F-actin capping protein, beta subunit; (InterPro:IPR001698)\\
## Solyc12g088220 & AT1G10070 & Encodes a chloroplast branched-chain amino acid aminotransferase. Complements the yeast leu/iso-leu/val auxotrophy mutant.\\
## Solyc12g089240 & NA & NA\\
## \bottomrule
## \end{tabular}Cluster 6
Up in Bmbr (early leaflets), low in everything else.
Solyc01g007760 & AT2G36010 & Member of the E2F transcription factors, (cell cycle genes),
Solyc03g007560 & AT5G41770 & crooked neck protein, putative / cell cycle protein, putative; similar to crooked neck protein, putative / cell
clusterVis(6)## Using gene as id variables
clusterVis_PCA(6)
#clusterVis_line(6)
#clusterGO(6)
y <- genesInClust(6, data.val2, annotation)## [1] 120kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g093300 & NA & NA\\
## Solyc00g142160 & NA & NA\\
## Solyc01g007760 & AT2G36010 & Member of the E2F transcription factors, (cell cycle genes), key components of the cyclin D/retinoblastoma/E2F pathway.\\
## Solyc01g090230 & NA & NA\\
## Solyc01g094600 & NA & NA\\
## \addlinespace
## Solyc01g094850 & NA & NA\\
## Solyc01g098120 & NA & NA\\
## Solyc01g098820 & NA & NA\\
## Solyc01g098910 & AT3G05290 & mitochondrial substrate carrier family protein; similar to mitochondrial substrate carrier family protein [Arabidopsis thaliana] (TAIR:AT5G27520.1); similar to Os05g0392700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055452.1); similar to Mitochondrial FAD carrier protein (ISS) [Ostreococcus tauri] (GB:CAL50155.1); contains InterPro domain Mitochondrial carrier protein; (InterPro:IPR002067); contains InterPro domain Mitochondrial substrate carrier; (InterPro:IPR001993)\\
## Solyc01g105660 & NA & NA\\
## \addlinespace
## Solyc01g106230 & NA & NA\\
## Solyc01g108900 & NA & NA\\
## Solyc01g110960 & NA & NA\\
## Solyc01g111050 & NA & NA\\
## Solyc01g111420 & NA & NA\\
## \addlinespace
## Solyc01g111610 & NA & NA\\
## Solyc02g055390 & NA & NA\\
## Solyc02g070630 & AT1G17080 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G53560.1); similar to Os01g0667100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043806.1); similar to Os05g0564800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056334.1); similar to Os01g0242900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042559.1); contains domain 60S RIBOSOMAL PROTEIN L18A (PTHR10052); contains domain 60S RIBOSOMAL PROTEIN L18A, PLANT (PTHR10052:SF2)\\
## Solyc02g078370 & NA & NA\\
## Solyc02g079820 & NA & NA\\
## \addlinespace
## Solyc02g080650 & NA & NA\\
## Solyc02g081570 & AT1G65730 & Arabidopsis thaliana metal-nicotianamine transporter YSL4\\
## Solyc02g083940 & AT5G66240 & transducin family protein / WD-40 repeat family protein; similar to transducin family protein / WD-40 repeat family protein [Arabidopsis thaliana] (TAIR:AT5G14530.1); similar to hypothetical protein DDBDRAFT_0218126 [Dictyostelium discoideum AX4] (GB:XP_641992.1); similar to Os07g0589400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060150.1); similar to Os05g0543300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056203.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc02g084640 & AT4G36250 & Encodes a putative aldehyde dehydrogenase. The gene is not responsive to osmotic stress and is expressed constitutively at a low level in plantlets and root cultures.\\
## Solyc02g085530 & AT4G36680 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G18520.1); similar to BAC19.8 [Lycopersicon esculentum] (GB:AAG01123.1); similar to Os08g0499800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062150.1); similar to Os02g0633200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047508.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc02g093310 & AT4G36945 & phospholipase C; similar to phospholipase C [Arabidopsis thaliana] (TAIR:AT3G19310.1); similar to Phosphatidylinositol-specific phospholipase C, X re (GB:ABE93551.1); contains InterPro domain Phosphatidylinositol-specific phospholipase C, X region; (InterPro:IPR000909)\\
## Solyc02g094030 & NA & NA\\
## Solyc03g006900 & AT5G51800 & similar to gt-2-related [Arabidopsis thaliana] (TAIR:AT2G33550.1); similar to CRN-like CRN8 [Phytophthora infestans] (GB:AAY43402.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009)\\
## Solyc03g007560 & AT5G41770 & crooked neck protein, putative / cell cycle protein, putative; similar to crooked neck protein, putative / cell cycle protein, putative [Arabidopsis thaliana] (TAIR:AT3G51110.1); similar to crooked neck protein, putative / cell cycle protein, putative [Arabidopsis thaliana] (TAIR:AT3G13210.1); similar to crooked neck protein, putative / cell cycle protein, putative [Arabidopsis thaliana] (TAIR:AT5G45990.1); similar to hypothetical protein LOC393920 [Danio rerio] (GB:NP_957240.1); similar to PREDICTED: similar to crooked neck protein isoform 1 [Canis familiaris] (GB:XP_534328.2); similar to PREDICTED: similar to Crooked neck-like protein 1 (Crooked neck homolog) (hCrn) [Bos taurus] (GB:XP_604909.2); contains InterPro domain Tetratricopeptide region; (InterPro:IPR013026); contains InterPro domain RNA-processing protein, HAT helix; (InterPro:IPR003107); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc03g020000 & NA & NA\\
## \addlinespace
## Solyc03g059360 & NA & NA\\
## Solyc03g083600 & NA & NA\\
## Solyc03g096050 & AT5G05600 & oxidoreductase, 2OG-Fe(II) oxygenase family protein; similar to oxidoreductase, 2OG-Fe(II) oxygenase family protein [Arabidopsis thaliana] (TAIR:AT3G11180.1); similar to 2OG-Fe(II) oxygenase [Medicago truncatula] (GB:ABE94015.1); contains InterPro domain Isopenicillin N synthase; (InterPro:IPR002283); contains InterPro domain 2OG-Fe(II) oxygenase; (InterPro:IPR005123)\\
## Solyc03g112860 & NA & NA\\
## Solyc03g113750 & AT1G74900 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G77360.1); similar to Os02g0679200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047736.1); similar to pentatricopeptide, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF98845.1); similar to putative reverse transcriptase [Oryza sativa (japonica cultivar-group)] (GB:AAK71569.2); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc03g115660 & AT1G18670 & Encodes a cyclin-dependent kinase-like protein with a ser/thr protein kinase domain and an N-terminal myristoylation sequence. Mutants in this gene are unable to express female sterility in response to beta-aminobutyric acid, as wild type plants do.\\
## Solyc03g117570 & AT1G80880 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G15010.1); similar to pentatricopeptide (PPR) repeat-containing protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD82704.1); similar to Os08g0272200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061426.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc03g118320 & AT1G24290 & AAA-type ATPase family protein; similar to replication factor C 36 kDA, putative [Arabidopsis thaliana] (TAIR:AT1G77470.1); similar to hypothetical protein LOC405856 [Danio rerio] (GB:NP_998085.1); contains InterPro domain Replication factor C conserved region; (InterPro:IPR000862); contains InterPro domain UBA-like; (InterPro:IPR009060); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain Terpenoid synthase; (InterPro:IPR008949); contains InterPro domain Ubiquitin-associated; (InterPro:IPR000449); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc03g119050 & NA & NA\\
## Solyc03g120890 & NA & NA\\
## \addlinespace
## Solyc04g007030 & NA & NA\\
## Solyc04g010050 & AT1G08610 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G09900.1); similar to Os10g0476900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064852.1); similar to putative pentatricopeptide (PPR) repeat-containing protein [Oryza sativa (japonica cultivar-group)] (GB:BAD15828.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc04g015520 & NA & NA\\
## Solyc04g016210 & NA & NA\\
## Solyc04g049360 & AT2G28880 & EMB1997 (EMBRYO DEFECTIVE 1997); catalytic/ ligase/ oxo-acid-lyase; similar to ASA2 (anthranilate synthase 2), anthranilate synthase [Arabidopsis thaliana] (TAIR:AT2G29690.1); similar to aminodeoxychorismate synthase/glutamine amidotransferase [Lycopersicon esculentum] (GB:AAR83121.1); similar to putative aminodeoxychorismate synthase/glutamin amidotransferase [Oryza sativa (japonica cultivar-group)] (GB:BAD54000.1); contains InterPro domain Glutamine amidotransferase class-I; (InterPro:IPR000991); contains InterPro domain Carbamoyl-phosphate synthase, GATase region; (InterPro:IPR001317); contains InterPro domain Glutamine amidotransferase, class I, active site; (InterPro:IPR012998); contains InterPro domain Anthranilate synthase component I, N-terminal; (InterPro:IPR006805); contains InterPro domain Para-aminobenzoate synthase, component I; (InterPro:IPR005802); contains InterPro domain Anthranilate synthase component II/delta crystallin; (InterPro:IPR006220); contains InterPro domain Glutamine amidotransferase superfamily; (InterPro:IPR011702); contains InterPro domain Anthranilate synthase component I and chorismate binding protein; (InterPro:IPR005801)\\
## \addlinespace
## Solyc04g055050 & NA & NA\\
## Solyc04g063300 & AT3G26540 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G53360.1); similar to Os04g0436800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052854.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABE78309.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc04g071150 & NA & NA\\
## Solyc04g073980 & NA & NA\\
## Solyc04g077180 & AT1G10040 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G25770.1); similar to Os03g0726800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051137.1); similar to Protein of unknown function DUF676, hydrolase-like [Medicago truncatula] (GB:ABE80808.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Protein of unknown function DUF676, hydrolase-like; (InterPro:IPR007751)\\
## \addlinespace
## Solyc04g078890 & AT4G17650 & aromatic-rich family protein; similar to aromatic-rich family protein [Glycine max] (GB:ABC47856.1); contains InterPro domain Streptomyces cyclase/dehydrase; (InterPro:IPR005031)\\
## Solyc05g007300 & AT1G69700 & Part of the AtHVA22 family. Protein expression is ABA- and stress-inducible.\\
## Solyc05g011960 & NA & NA\\
## Solyc05g012630 & AT1G69350 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G18750.1); similar to PPR986-12 [Physcomitrella patens] (GB:BAD67155.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc05g014270 & NA & NA\\
## \addlinespace
## Solyc05g018830 & NA & NA\\
## Solyc05g021110 & NA & NA\\
## Solyc05g023950 & NA & NA\\
## Solyc05g045650 & AT1G05200 & member of Putative ligand-gated ion channel subunit family\\
## Solyc06g006050 & NA & NA\\
## \addlinespace
## Solyc06g008290 & AT1G03950 & SNF7 family protein; similar to SNF7 family protein [Arabidopsis thaliana] (TAIR:AT5G44560.1); similar to Os10g0476400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064848.1); similar to BRI1-KD interacting protein 109 [Oryza sativa (japonica cultivar-group)] (GB:BAD11337.1); similar to Os03g0639800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050739.1); contains InterPro domain Snf7; (InterPro:IPR005024); contains InterPro domain Putative DNA binding; (InterPro:IPR009061)\\
## Solyc06g010240 & NA & NA\\
## Solyc06g030470 & NA & NA\\
## Solyc06g051140 & NA & NA\\
## Solyc06g060440 & AT1G57620 & emp24/gp25L/p24 family protein; similar to emp24/gp25L/p24 family protein [Arabidopsis thaliana] (TAIR:AT1G09580.1); similar to Os06g0210100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057112.1); similar to emp24 protein [Hyacinthus orientalis] (GB:AAT08688.1); contains InterPro domain emp24/gp25L/p24; (InterPro:IPR000348); contains InterPro domain GOLD; (InterPro:IPR009038)\\
## \addlinespace
## Solyc06g068350 & NA & NA\\
## Solyc06g070990 & NA & NA\\
## Solyc06g071650 & AT1G60780 & clathrin adaptor complexes medium subunit family protein; similar to clathrin adaptor complexes medium subunit family protein [Arabidopsis thaliana] (TAIR:AT1G10730.1); similar to clathrin-associated protein unc-101-like [Oryza sativa (japonica cultivar-group)] (GB:BAD81570.1); similar to Os01g0703600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044001.1); similar to Os05g0543100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056201.1); contains InterPro domain Clathrin adaptor complex, medium chain; (InterPro:IPR001392); contains InterPro domain Longin-like; (InterPro:IPR011012); contains InterPro domain Mu2 adaptin subunit (AP50) of AP2; (InterPro:IPR008968)\\
## Solyc06g073490 & AT2G43250 & similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE91029.1)\\
## Solyc06g074170 & NA & NA\\
## \addlinespace
## Solyc06g076600 & AT5G59010 & ATP binding / binding / protein kinase; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT3G54030.1); similar to TPR-containing protein kinase [Glycine max] (GB:AAX61123.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc06g076930 & AT2G29940 & ATPDR3/PDR3 (PLEIOTROPIC DRUG RESISTANCE 3); ATPase, coupled to transmembrane movement of substances; Identical to Probable pleiotropic drug resistance protein 3 (PDR3) [Arabidopsis Thaliana] (GB:Q7PC88;GB:O80878); similar to PDR8/PEN3 (PLEIOTROPIC DRUG RESISTANCE8), ATPase, coupled to transmembrane movement of substances [Arabidopsis thaliana] (TAIR:AT1G59870.1); similar to ATPDR1/PDR1 (PLEIOTROPIC DRUG RESISTANCE 1), ATPase, coupled to transmembrane movement of substances [Arabidopsis thaliana] (TAIR:AT3G16340.1); similar to ATPDR7/PDR7 (PLEIOTROPIC DRUG RESISTANCE 7), ATPase, coupled to transmembrane movement of substances [Arabidopsis thaliana] (TAIR:AT1G15210.1); similar to PDR-like ABC transpoter [Oryza sativa (japonica cultivar-group)] (GB:CAD59564.1); similar to Probable pleiotropic drug resistance protein 2 (GB:Q8GU92); similar to Pleiotropic drug resistance protein 13 (GB:Q8S628); contains InterPro domain ABC-2 type transporter; (InterPro:IPR013525); contains InterPro domain Plant PDR ABC transporter associated; (InterPro:IPR013581); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain ABC transporter related; (InterPro:IPR003439)\\
## Solyc06g084280 & NA & NA\\
## Solyc07g005740 & NA & NA\\
## Solyc07g025330 & NA & NA\\
## \addlinespace
## Solyc07g032740 & AT5G19550 & Nitrogen metabolism. Major cytosolic isoenzyme controlling aspartate biosynthesis in the light.\\
## Solyc07g042970 & AT5G60870 & regulator of chromosome condensation (RCC1) family protein; similar to UVR8 (UVB-RESISTANCE 8) [Arabidopsis thaliana] (TAIR:AT5G63860.1); similar to Regulator of chromosome condensation/beta-lactamase-inhibitor protein II [Medicago truncatula] (GB:ABD32475.1); contains InterPro domain Regulator of chromosome condensation, RCC1; (InterPro:IPR000408); contains InterPro domain Regulator of chromosome condensation/beta-lactamase-inhibitor protein II; (InterPro:IPR009091)\\
## Solyc07g052730 & NA & NA\\
## Solyc07g066250 & AT1G55580 & Encodes a member of the GRAS family of putative transcriptional regulators. It is involved in the initiation of axillary meristems during both the vegetative and reproductive growth phases and functions upstream of REV and AXR1 in the regulation of shoot branching.\\
## Solyc08g007160 & AT4G17615 & member of AtCBLs (Calcineurin B-like Calcium Sensor Proteins). Protein level is increased upon high salt, mannitol, and cold stresses.\\
## \addlinespace
## Solyc08g016320 & NA & NA\\
## Solyc08g067920 & NA & NA\\
## Solyc08g074270 & AT5G24850 & Binds flavin adenine dinucleotide and DNA. It does not have photolyase activity, and it is likely to act as photoreceptor. Closely related to Synechocystis cryptochrome.\\
## Solyc08g075760 & NA & NA\\
## Solyc08g079480 & AT2G45360 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G60780.1); similar to Os02g0455400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046773.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD19988.1); contains InterPro domain Protein of unknown function DUF1442; (InterPro:IPR009902)\\
## \addlinespace
## Solyc08g081290 & NA & NA\\
## Solyc08g081740 & AT1G64110 & AAA-type ATPase family protein; similar to AAA-type ATPase family protein [Arabidopsis thaliana] (TAIR:AT4G28000.1); similar to ATP binding / nucleoside-triphosphatase/ nucleotide binding [Arabidopsis thaliana] (TAIR:AT5G52882.1); similar to AAA ATPase, central re (GB:ABE83074.1); similar to AAA ATPase, central re (GB:ABE87117.1); similar to AAA ATPase, central re (GB:ABE79750.1); contains InterPro domain AAA-protein subdomain; (InterPro:IPR003960); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc08g082340 & AT5G60620 & phospholipid/glycerol acyltransferase family protein; similar to phospholipid/glycerol acyltransferase family protein [Arabidopsis thaliana] (TAIR:AT1G80950.1); similar to Phospholipid/glycerol acyltransferase [Medicago truncatula] (GB:ABE86597.1); contains InterPro domain Phospholipid/glycerol acyltransferase; (InterPro:IPR002123)\\
## Solyc08g082860 & AT4G24040 & Encodes a trehalase, member of Glycoside Hydrolase Family 37.\\
## Solyc09g005990 & NA & NA\\
## \addlinespace
## Solyc09g007320 & AT3G09650 & RNA binding protein involved in the processing of chloroplast psbB-psbT-psbH-petB-petD transcript unit.\\
## Solyc09g008830 & NA & NA\\
## Solyc09g014610 & NA & NA\\
## Solyc10g008460 & AT2G20770 & lanthionine synthetase C-like family protein; similar to catalytic [Arabidopsis thaliana] (TAIR:AT1G52920.1); similar to Lanthionine synthetase C-like; Glycoside transferase, six-hairpin [Medicago truncatula] (GB:ABE84131.1); contains InterPro domain Six-hairpin glycosidase; (InterPro:IPR008928); contains InterPro domain Lanthionine synthetase C-like; (InterPro:IPR007822)\\
## Solyc10g009080 & NA & NA\\
## \addlinespace
## Solyc10g009110 & NA & NA\\
## Solyc10g009390 & AT1G01280 & member of CYP703A CYP703A2 is expressed specifically in anthers of land plants, catalyzing the in-chain hydroxylation at the C-7 position of medium-chain saturated fatty acids (lauric acid in-chain hydroxylase) which is involved in pollen development (sporopollenin synthesis).\\
## Solyc10g018880 & NA & NA\\
## Solyc10g044720 & NA & NA\\
## Solyc10g045400 & AT3G54610 & Encodes a histone acetyltransferase that is plays a role in the determination of the embryonic root-shoot axis. It is also required to regulate the floral meristem activity by modulating the extent of expression of WUS and AG. In other eukaryotes, this protein is recruited to specific promoters by DNA binding transcription factors and is thought to promote transcription by acetylating the N-terminal tail of histone H3.\\
## \addlinespace
## Solyc10g049650 & NA & NA\\
## Solyc10g055700 & AT2G17033 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G53170.1); similar to EMB2750 (EMBRYO DEFECTIVE 2750), binding [Arabidopsis thaliana] (TAIR:AT3G06430.1); similar to pentatricopeptide (PPR) repeat protein-like [Cucumis melo] (GB:AAU04769.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Smr protein/MutS2 C-terminal; (InterPro:IPR002625)\\
## Solyc10g083950 & AT2G39210 & nodulin family protein; similar to nodulin family protein [Arabidopsis thaliana] (TAIR:AT2G28120.1); similar to putative nodule-specific protein [Oryza sativa (japonica cultivar-group)] (GB:AAO37543.1); similar to nitrate and chloride transporter [Glycine max] (GB:AAW51884.1); similar to putative nodule-specific protein [Oryza sativa (japonica cultivar-group)] (GB:BAC83908.1); contains InterPro domain Nodulin-like; (InterPro:IPR010658)\\
## Solyc11g007260 & NA & NA\\
## Solyc11g045110 & AT4G10120 & Encodes a protein with putative sucrose-phosphate synthase activity.\\
## \addlinespace
## Solyc11g064800 & NA & NA\\
## Solyc11g069810 & AT5G04250 & OTU-like cysteine protease family protein; similar to OTU-like cysteine protease family protein [Arabidopsis thaliana] (TAIR:AT5G03330.2); similar to OTU-like cysteine protease-like [Oryza sativa (japonica cultivar-group)] (GB:BAD22968.1); similar to Os03g0859800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051970.1); contains InterPro domain Ovarian tumour, otubain; (InterPro:IPR003323)\\
## Solyc11g071690 & NA & NA\\
## Solyc11g071750 & AT5G42380 & calmodulin-related protein, putative; similar to calcium-binding EF hand family protein [Arabidopsis thaliana] (TAIR:AT1G76650.1); similar to regulator of gene silencing [Lycopersicon esculentum] (GB:AAT65969.1); contains InterPro domain EF-Hand type; (InterPro:IPR011992); contains InterPro domain Calcium-binding EF-hand; (InterPro:IPR002048)\\
## Solyc12g005560 & NA & NA\\
## \addlinespace
## Solyc12g010180 & NA & NA\\
## Solyc12g014600 & NA & NA\\
## Solyc12g044500 & NA & NA\\
## Solyc12g049460 & NA & NA\\
## Solyc12g056470 & NA & NA\\
## \addlinespace
## Solyc12g094440 & AT1G76110 & high mobility group (HMG1/2) family protein / ARID/BRIGHT DNA-binding domain-containing protein; similar to high mobility group (HMG1/2) family protein / ARID/BRIGHT DNA-binding domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G04880.1); similar to glutathione S-transferase GST 16 - like protein [Oryza sativa (japonica cultivar-group)] (GB:BAC79159.1); contains InterPro domain HMG1/2 (high mobility group) box; (InterPro:IPR000910); contains InterPro domain AT-rich interaction region; (InterPro:IPR001606); contains InterPro domain High mobility group box; (InterPro:IPR009071)\\
## Solyc12g095940 & NA & NA\\
## Solyc12g095980 & NA & NA\\
## Solyc12g096350 & NA & NA\\
## Solyc12g096860 & NA & NA\\
## \bottomrule
## \end{tabular}Cluster 7
Tight cluster. WTcother high.
Maybe transporters?
clusterVis(7)## Using gene as id variables
clusterVis_PCA(7)
clusterVis_line(7)## Using gene, curated as id variables
#clusterGO(7)
y <- genesInClust(7, data.val2, annotation)## [1] 190kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g005070 & NA & NA\\
## Solyc00g009770 & NA & NA\\
## Solyc00g022070 & NA & NA\\
## Solyc00g023710 & NA & NA\\
## Solyc00g027140 & NA & NA\\
## \addlinespace
## Solyc00g042640 & NA & NA\\
## Solyc00g095760 & AT3G61510 & Encodes a member of the 1-aminocyclopropane-1-carboxylate (ACC) synthase (S-adenosyl-L-methionine methylthioadenosine-lyase, EC 4.4.1.14) gene family. The gene is transcriptionally active but enzymatically inactive. The predicted amino-acid sequence of ACS1 is missing the highly conserved tripeptide, Thr-Asn-Pro (TNP), between Ile204 and Ser205. Introduction of TNP into ACS1 restores the ACS activity.\\
## Solyc00g121730 & NA & NA\\
## Solyc00g131710 & NA & NA\\
## Solyc00g195360 & NA & NA\\
## \addlinespace
## Solyc00g206460 & NA & NA\\
## Solyc00g281110 & NA & NA\\
## Solyc00g309530 & NA & NA\\
## Solyc01g005790 & AT1G10330 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G66520.1); similar to Pentatricopeptide repeat [Medicago truncatula] (GB:ABE89006.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc01g007680 & NA & NA\\
## \addlinespace
## Solyc01g008750 & NA & NA\\
## Solyc01g011410 & ATCG01110 & Encodes the 49KDa plastid NAD(P)H dehydrogenase subunit H protein. Its transcription is regulated by an ndhF-specific plastid sigma factor, SIG4.\\
## Solyc01g014500 & NA & NA\\
## Solyc01g015220 & NA & NA\\
## Solyc01g016330 & NA & NA\\
## \addlinespace
## Solyc01g017100 & ATCG01010 & Chloroplast encoded NADH dehydrogenase unit.\\
## Solyc01g020250 & NA & NA\\
## Solyc01g022770 & NA & NA\\
## Solyc01g022780 & NA & NA\\
## Solyc01g028970 & NA & NA\\
## \addlinespace
## Solyc01g049700 & NA & NA\\
## Solyc01g057100 & NA & NA\\
## Solyc01g057240 & NA & NA\\
## Solyc01g058510 & NA & NA\\
## Solyc01g059910 & AT3G04690 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G28680.1); similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT3G51550.1); similar to Os05g0280700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055089.1); similar to putative receptor-like protein kinase [Oryza sativa (japonica cultivar-group)] (GB:BAD81103.1); similar to receptor protein kinase-like protein [Capsicum annuum] (GB:AAL40864.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## \addlinespace
## Solyc01g087360 & NA & NA\\
## Solyc01g090510 & AT3G25970 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G13650.1); similar to Os08g0375800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061673.1); similar to PPR986-12 [Physcomitrella patens] (GB:BAD67155.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc01g095320 & NA & NA\\
## Solyc01g095950 & ATCG00190 & Chloroplast DNA-dependent RNA polymerase B subunit. The transcription of this gene is regulated by a nuclear encoded RNA polymerase. This gene has been transferred to mitochondrial genome during crucifer evolution.\\
## Solyc01g096050 & AT1G01260 & basic helix-loop-helix (bHLH) family protein; similar to basic helix-loop-helix (bHLH) family protein [Arabidopsis thaliana] (TAIR:AT2G46510.1); similar to Os01g0235700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042524.1); similar to bHLH protein -like [Oryza sativa (japonica cultivar-group)] (GB:BAD81265.1); contains InterPro domain Helix-loop-helix DNA-binding; (InterPro:IPR011598); contains InterPro domain Basic helix-loop-helix dimerisation region bHLH; (InterPro:IPR001092)\\
## \addlinespace
## Solyc01g096410 & AT3G07960 & phosphatidylinositol-4-phosphate 5-kinase family protein; Identical to Phosphatidylinositol-4-phosphate 5-kinase 6 (EC 2.7.1.68) (AtPIP5K6) (1-phosphatidylinositol-4-phosphate kinase 6) (PtdIns(4)P-5-kinase 6) (Diphosphoinositide kinase 6) (PIP5K6) [Arabidopsis Thaliana] (GB:Q9SFB8); similar to phosphatidylinositol-4-phosphate 5-kinase family protein [Arabidopsis thaliana] (TAIR:AT3G56960.1); similar to phosphatidylinositol-4-phosphate 5-kinase family protein [Arabidopsis thaliana] (TAIR:AT2G41210.1); similar to 1-phosphatidylinositol-4-phosphate 5-kinase, putative / PIP kinase, putative / PtdIns(4)P-5-kinase, putative / diphosphoinositide kinase, putative [Arabidopsis thaliana] (TAIR:AT1G77740.1); similar to Phosphatidylinositol-4-phosphate 5-kinase 4, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF96031.1); similar to Phosphatidylinositol-4-phosphate 5-kinase [Medicago truncatula] (GB:ABD28331.1); similar to Phosphatidylinositol-4-phosphate 5-kinase 4, putative [Oryza sativa (japonica cultivar-group)] (GB:ABA91440.1); contains InterPro domain Phosphatidylinositol-4-phosphate 5-kinase; (InterPro:IPR002498); contains InterPro domain MORN motif; (InterPro:IPR003409)\\
## Solyc01g108420 & NA & NA\\
## Solyc01g112310 & AT4G35440 & CLC-e chloride channel protein\\
## Solyc02g011720 & NA & NA\\
## Solyc02g011800 & ATCG01100 & NADH dehydrogenase ND1\\
## \addlinespace
## Solyc02g021090 & NA & NA\\
## Solyc02g049090 & NA & NA\\
## Solyc02g062790 & NA & NA\\
## Solyc02g067590 & ATCG00190 & Chloroplast DNA-dependent RNA polymerase B subunit. The transcription of this gene is regulated by a nuclear encoded RNA polymerase. This gene has been transferred to mitochondrial genome during crucifer evolution.\\
## Solyc02g068000 & NA & NA\\
## \addlinespace
## Solyc02g068400 & AT4G20050 & Encodes a polygalacturonase that plays a direct role in degrading the pollen mother cell wall during microspore development.\\
## Solyc02g069520 & NA & NA\\
## Solyc02g077210 & NA & NA\\
## Solyc02g077940 & NA & NA\\
## Solyc02g080210 & AT1G11580 & pectin methylesterase, putative; similar to pectin methylesterase, putative [Arabidopsis thaliana] (TAIR:AT1G11590.1); similar to pectin methylesterase [Sesbania rostrata] (GB:CAD29733.1); contains InterPro domain Virulence factor, pectin lyase fold; (InterPro:IPR011050); contains InterPro domain Plant invertase/pectin methylesterase inhibitor; (InterPro:IPR007186); contains InterPro domain Pectinesterase; (InterPro:IPR000070); contains InterPro domain Pectinesterase inhibitor; (InterPro:IPR006501)\\
## \addlinespace
## Solyc02g082210 & AT3G26950 & similar to Os11g0507400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067953.1)\\
## Solyc02g083210 & NA & NA\\
## Solyc02g084890 & AT3G50950 & disease resistance protein (CC-NBS-LRR class), putative; Identical to Putative disease resistance RPP13-like protein 4 (RPP13L4) [Arabidopsis Thaliana] (GB:Q38834;GB:Q9SVK4); similar to RPP8 (RECOGNITION OF PERONOSPORA PARASITICA 8) [Arabidopsis thaliana] (TAIR:AT5G43470.2); similar to myosin heavy chain homolog (GB:AAA63149.1); contains InterPro domain NB-ARC; (InterPro:IPR002182); contains InterPro domain Disease resistance protein; (InterPro:IPR000767); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611)\\
## Solyc02g085750 & NA & NA\\
## Solyc02g089010 & NA & NA\\
## \addlinespace
## Solyc02g090440 & NA & NA\\
## Solyc02g091330 & AT1G66510 & AAR2 protein family; similar to CePP protein [Brassica napus var. napus] (GB:CAB89180.1); contains InterPro domain AAR2; (InterPro:IPR007946)\\
## Solyc03g013360 & NA & NA\\
## Solyc03g058160 & NA & NA\\
## Solyc03g062840 & NA & NA\\
## \addlinespace
## Solyc03g063380 & NA & NA\\
## Solyc03g063810 & NA & NA\\
## Solyc03g063890 & NA & NA\\
## Solyc03g110990 & NA & NA\\
## Solyc03g116900 & AT1G15960 & member of Nramp2 family\\
## \addlinespace
## Solyc03g118310 & AT3G26744 & Encodes a MYC-like bHLH transcriptional activator that binds specifically to the MYC recognition sequences in the CBF3 promoter. Mutants are defective in cold-regulated gene expression. Cold stress triggers protein degradation of nuclear GFPICE1 protein, and the RING finger protein HOS1 is required.\\
## Solyc03g119840 & AT1G48960 & universal stress protein (USP) family protein; similar to MRH6 (morphogenesis of root hair 6) [Arabidopsis thaliana] (TAIR:AT2G03720.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAB39882.1); contains InterPro domain UspA; (InterPro:IPR006016)\\
## Solyc04g005200 & AT1G68890 & Homologous to the four eubacterial men genes involved in menanoquinone biosynthesis. Studies of mutants defective in this gene demonstrated its involvement in phylloquinone biosynthesis in Arabidopsis.\\
## Solyc04g005540 & NA & NA\\
## Solyc04g011950 & NA & NA\\
## \addlinespace
## Solyc04g011970 & NA & NA\\
## Solyc04g012200 & NA & NA\\
## Solyc04g014660 & NA & NA\\
## Solyc04g017990 & NA & NA\\
## Solyc04g025620 & NA & NA\\
## \addlinespace
## Solyc04g040080 & NA & NA\\
## Solyc04g049250 & ATMG00570 & encodes a protein of unknown function. The transcript has extensive RNA editing at the 3' end. Protein has orthologous in other plants and sequence is similar to E. coli ORFs orf154 and orf131, both of unknown function. So far, similar proteins are found only in plants and prokaryotes.\\
## Solyc04g049560 & NA & NA\\
## Solyc05g005280 & NA & NA\\
## Solyc05g005970 & NA & NA\\
## \addlinespace
## Solyc05g008510 & AT1G71140 & MATE efflux family protein; similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G15170.1); similar to Multi antimicrobial extrusion protein MatE [Medicago truncatula] (GB:ABE93671.1); similar to Os01g0684900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043893.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## Solyc05g013080 & NA & NA\\
## Solyc05g013410 & AT1G70590 & F-box family protein; similar to suppressor of lin-12-like protein-related / sel-1 protein-related [Arabidopsis thaliana] (TAIR:AT1G18260.1); similar to Sel1-like repeat [Geobacter uraniumreducens Rf4] (GB:ZP_01140406.1); similar to OSIGBa0106G07.11 [Oryza sativa (indica cultivar-group)] (GB:CAH67315.1); similar to Os04g0476000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053077.1); contains InterPro domain Tetratricopeptide region; (InterPro:IPR013026); contains InterPro domain Cyclin-like F-box; (InterPro:IPR001810); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990); contains InterPro domain Sel1-like; (InterPro:IPR006597)\\
## Solyc05g015760 & NA & NA\\
## Solyc05g016480 & NA & NA\\
## \addlinespace
## Solyc05g017910 & NA & NA\\
## Solyc05g021410 & NA & NA\\
## Solyc05g024280 & NA & NA\\
## Solyc05g039920 & NA & NA\\
## Solyc05g054570 & NA & NA\\
## \addlinespace
## Solyc06g009770 & NA & NA\\
## Solyc06g011420 & NA & NA\\
## Solyc06g030580 & AT2G39670 & radical SAM domain-containing protein; similar to radical SAM domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G19630.1); similar to radical SAM domain-containing protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD87375.1); contains InterPro domain Radical SAM; (InterPro:IPR007197); contains InterPro domain Conserved hypothetical protein 48; (InterPro:IPR004383); contains InterPro domain Elongator protein 3/MiaB/NifB; (InterPro:IPR006638)\\
## Solyc06g035940 & NA & NA\\
## Solyc06g036390 & NA & NA\\
## \addlinespace
## Solyc06g043280 & NA & NA\\
## Solyc06g050990 & AT1G09870 & histidine acid phosphatase family protein; similar to alkaline phytase isoform 2 [Lilium lon (GB:ABD96176.1); contains InterPro domain Histidine acid phosphatase; (InterPro:IPR000560)\\
## Solyc06g051490 & NA & NA\\
## Solyc06g059740 & AT1G77120 & Catalyzes the reduction of acetaldehyde using NADH as reductant. Requires zinc for activity. Dimer. Anaerobic response polypeptide (ANP). Fermentation. The protein undergoes thiolation following treatment with the oxidant tert-butylhydroperoxide.\\
## Solyc06g062670 & NA & NA\\
## \addlinespace
## Solyc06g072010 & NA & NA\\
## Solyc07g005170 & NA & NA\\
## Solyc07g007140 & NA & NA\\
## Solyc07g009220 & AT2G34400 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G08820.1); similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G22410.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABD33369.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc07g025190 & NA & NA\\
## \addlinespace
## Solyc07g032030 & NA & NA\\
## Solyc07g039270 & NA & NA\\
## Solyc07g041690 & NA & NA\\
## Solyc07g044800 & NA & NA\\
## Solyc07g055330 & NA & NA\\
## \addlinespace
## Solyc07g064380 & NA & NA\\
## Solyc08g006860 & NA & NA\\
## Solyc08g022190 & NA & NA\\
## Solyc08g022200 & NA & NA\\
## Solyc08g023400 & NA & NA\\
## \addlinespace
## Solyc08g044510 & AT2G44480 & glycosyl hydrolase family 1 protein; similar to glycosyl hydrolase family 1 protein [Arabidopsis thaliana] (TAIR:AT2G44450.1); similar to Glycoside hydrolase, family 1 [Medicago truncatula] (GB:ABE86373.1); contains InterPro domain 6-phospho-beta-galactosidase, eukaryotic; (InterPro:IPR011580); contains InterPro domain Glycoside hydrolase, family 1; (InterPro:IPR001360)\\
## Solyc08g048080 & NA & NA\\
## Solyc08g060910 & NA & NA\\
## Solyc08g061440 & NA & NA\\
## Solyc08g062350 & NA & NA\\
## \addlinespace
## Solyc08g068550 & NA & NA\\
## Solyc08g078100 & AT1G31830 & amino acid permease family protein; similar to amino acid permease family protein [Arabidopsis thaliana] (TAIR:AT1G31820.1); similar to amino acid permease family protein [Arabidopsis thaliana] (TAIR:AT5G05630.1); similar to putative amino acid permease [Oryza sativa (japonica cultivar-group)] (GB:AAR10855.1); similar to amino acid permease family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97257.1); similar to Os03g0576900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050538.1); contains InterPro domain Amino acid permease-associated region; (InterPro:IPR004841); contains InterPro domain Amino acid/polyamine transporter I; (InterPro:IPR002293)\\
## Solyc08g078890 & NA & NA\\
## Solyc09g007690 & NA & NA\\
## Solyc09g008090 & NA & NA\\
## \addlinespace
## Solyc09g008300 & NA & NA\\
## Solyc09g010530 & AT3G53720 & member of Putative Na+/H+ antiporter family. Involved in the osmoregulation through K(+) fluxes and possibly pH modulation of an active endomembrane system in guard cells.\\
## Solyc09g010780 & AT2G28890 & Encodes a protein phosphatase 2C like gene, similar to POL. Involved in leaf development. Knockout mutants have abnormally shaped leaves.\\
## Solyc09g015890 & NA & NA\\
## Solyc09g037030 & NA & NA\\
## \addlinespace
## Solyc09g050010 & NA & NA\\
## Solyc09g055810 & AT4G01810 & protein transport protein-related; similar to transport protein, putative [Arabidopsis thaliana] (TAIR:AT2G21630.1); similar to putative Sec23 protein [Oryza sativa (japonica cultivar-group)] (GB:BAD44981.1); similar to Os01g0321700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042891.1); contains InterPro domain Sec23/Sec24 beta-sandwich; (InterPro:IPR012990); contains InterPro domain Gelsolin; (InterPro:IPR007122); contains InterPro domain Zinc finger, Sec23/Sec24-type; (InterPro:IPR006895); contains InterPro domain 4Fe-4S ferredoxin, iron-sulfur binding; (InterPro:IPR001450); contains InterPro domain Sec23/Sec24 trunk region; (InterPro:IPR006896); contains InterPro domain Gelsolin region; (InterPro:IPR007123); contains InterPro domain Sec23/Sec24 helical region; (InterPro:IPR006900)\\
## Solyc09g092150 & AT2G20540 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G56310.1); similar to Pentatricopeptide repeat [Medicago truncatula] (GB:ABE93365.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc09g092220 & AT4G13800 & permease-related; similar to permease-related [Arabidopsis thaliana] (TAIR:AT3G23870.1); similar to OSJNBa0069D17.4 [Oryza sativa (japonica cultivar-group)] (GB:CAD40575.1); similar to Os05g0424800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055595.1); similar to Protein of unknown function DUF803 [Medicago truncatula] (GB:ABE89975.1); contains InterPro domain Protein of unknown function DUF803; (InterPro:IPR008521)\\
## Solyc09g092680 & AT3G23660 & transport protein, putative; similar to transport protein, putative [Arabidopsis thaliana] (TAIR:AT4G14160.2); similar to transport protein, putative [Arabidopsis thaliana] (TAIR:AT2G21630.1); similar to transport protein, putative [Arabidopsis thaliana] (TAIR:AT1G05520.1); similar to At1g05520/T25N20_16 [Oryza sativa (japonica cultivar-group)] (GB:AAX96396.1); similar to Vesicle coat complex COPII, subunit SEC23 (ISS) [Ostreococcus tauri] (GB:CAL55059.1); similar to hypothetical protein UM01624.1 [Ustilago maydis 521] (GB:XP_757771.1); contains InterPro domain Sec23/Sec24 beta-sandwich; (InterPro:IPR012990); contains InterPro domain Zinc finger, Sec23/Sec24-type; (InterPro:IPR006895); contains InterPro domain Sec23/Sec24 trunk region; (InterPro:IPR006896); contains InterPro domain Gelsolin region; (InterPro:IPR007123); contains InterPro domain Sec23/Sec24 helical region; (InterPro:IPR006900)\\
## \addlinespace
## Solyc10g009020 & AT3G47160 & protein binding / zinc ion binding; similar to zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] (TAIR:AT5G58787.1); similar to Os04g0679800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054282.1); similar to H0801D08.18 [Oryza sativa (indica cultivar-group)] (GB:CAJ86260.1); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc10g012010 & NA & NA\\
## Solyc10g012220 & NA & NA\\
## Solyc10g012470 & NA & NA\\
## Solyc10g036800 & NA & NA\\
## \addlinespace
## Solyc10g045000 & NA & NA\\
## Solyc10g045140 & NA & NA\\
## Solyc10g049590 & NA & NA\\
## Solyc10g050210 & NA & NA\\
## Solyc10g052410 & NA & NA\\
## \addlinespace
## Solyc10g052420 & NA & NA\\
## Solyc10g052630 & NA & NA\\
## Solyc10g055490 & NA & NA\\
## Solyc10g074640 & NA & NA\\
## Solyc10g076170 & NA & NA\\
## \addlinespace
## Solyc10g077000 & NA & NA\\
## Solyc10g080330 & NA & NA\\
## Solyc10g080600 & NA & NA\\
## Solyc10g081760 & NA & NA\\
## Solyc10g083960 & AT5G03430 & phosphoadenosine phosphosulfate (PAPS) reductase family protein; similar to Os01g0259600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042640.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD81409.1); contains InterPro domain Phosphoadenosine phosphosulfate reductase; (InterPro:IPR002500); contains InterPro domain Molybdopterin binding domain; (InterPro:IPR001453)\\
## \addlinespace
## Solyc10g085030 & AT2G37970 & SOUL heme-binding family protein; similar to SOUL heme-binding family protein [Arabidopsis thaliana] (TAIR:AT3G10130.1); similar to SOUL heme-binding protein; Bacterial regulatory factor, effector [Medicago truncatula] (GB:ABE83861.1)\\
## Solyc10g086070 & AT3G53390 & transducin family protein / WD-40 repeat family protein; similar to nucleotide binding [Arabidopsis thaliana] (TAIR:AT2G37160.2); similar to Os12g0172500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066281.1); similar to transducin family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA96577.2); similar to WD40-like [Medicago truncatula] (GB:ABE83445.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc11g005100 & NA & NA\\
## Solyc11g007570 & AT3G16990 & TENA/THI-4 family protein; Identical to Seed maturation protein PM36 homolog [Arabidopsis Thaliana] (GB:Q9ASY9;GB:Q8LBN8); similar to Seed maturation protein PM36 (GB:Q9SWB6); contains InterPro domain TENA/THI-4 protein; (InterPro:IPR004305)\\
## Solyc11g017260 & NA & NA\\
## \addlinespace
## Solyc11g020560 & NA & NA\\
## Solyc11g021120 & NA & NA\\
## Solyc11g021190 & ATCG01010 & Chloroplast encoded NADH dehydrogenase unit.\\
## Solyc11g021270 & NA & NA\\
## Solyc11g030740 & NA & NA\\
## \addlinespace
## Solyc11g039520 & NA & NA\\
## Solyc11g039940 & NA & NA\\
## Solyc11g050910 & NA & NA\\
## Solyc11g056380 & NA & NA\\
## Solyc11g056390 & NA & NA\\
## \addlinespace
## Solyc11g056440 & NA & NA\\
## Solyc11g056510 & NA & NA\\
## Solyc11g056570 & NA & NA\\
## Solyc11g062200 & NA & NA\\
## Solyc11g063480 & NA & NA\\
## \addlinespace
## Solyc11g064770 & NA & NA\\
## Solyc11g065030 & AT2G13650 & GDP-mannose transporter\\
## Solyc11g066930 & NA & NA\\
## Solyc11g071670 & AT1G02420 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G61360.1); similar to IMP dehydrogenase/GMP reductase [Medicago truncatula] (GB:ABE78833.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc11g072440 & AT5G02970 & hydrolase, alpha/beta fold family protein; similar to hydrolase [Arabidopsis thaliana] (TAIR:AT3G09690.2); similar to Alpha/beta hydrolase fold [Medicago truncatula] (GB:ABE78305.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073)\\
## \addlinespace
## Solyc12g009540 & NA & NA\\
## Solyc12g017480 & AT2G19330 & leucine-rich repeat family protein; similar to protein binding [Arabidopsis thaliana] (TAIR:AT4G29880.1); similar to Os04g0605300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053794.1); similar to leucine-rich repeat protein 1 [Triticum aestivum] (GB:ABB90552.1); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, typical subtype; (InterPro:IPR003591)\\
## Solyc12g017930 & NA & NA\\
## Solyc12g035790 & NA & NA\\
## Solyc12g035940 & NA & NA\\
## \addlinespace
## Solyc12g044210 & NA & NA\\
## Solyc12g049350 & NA & NA\\
## Solyc12g049540 & AT3G14205 & phosphoinositide phosphatase family protein; similar to phosphoinositide phosphatase family protein [Arabidopsis thaliana] (TAIR:AT5G20840.1); similar to ATSAC1 (SUPPRESSOR OF ACTIN 1), phosphoinositide 5-phosphatase [Arabidopsis thaliana] (TAIR:AT1G22620.1); similar to phosphoinositide phosphatase family protein [Arabidopsis thaliana] (TAIR:AT3G43220.1); similar to Os03g0182400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049173.1); similar to Putative phosphoinositide phosphatase [Oryza sativa] (GB:AAK92639.1); similar to SacIy domain containing protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF94324.1); contains InterPro domain Synaptojanin, N-terminal; (InterPro:IPR002013)\\
## Solyc12g070240 & NA & NA\\
## Solyc12g082690 & NA & NA\\
## \bottomrule
## \end{tabular}Cluster 8
This is very similar to cluster 7. These two should most likely be together. Large Cluster.
clusterVis(8)## Using gene as id variables
clusterVis_PCA(8)
clusterVis_line(8)## Using gene, curated as id variables
#clusterGO(8)
y <- genesInClust(8, data.val2, annotation) ## [1] 420kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g005060 & NA & NA\\
## Solyc00g005170 & NA & NA\\
## Solyc00g005870 & NA & NA\\
## Solyc00g005880 & NA & NA\\
## Solyc00g006010 & NA & NA\\
## \addlinespace
## Solyc00g007140 & NA & NA\\
## Solyc00g009130 & AT4G09750 & short-chain dehydrogenase/reductase (SDR) family protein; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT4G24050.1); similar to putative short chain dehydrogenase/reductase [Oryza sativa (japonica cultivar-group)] (GB:BAD32915.1); contains InterPro domain Alcohol dehydrogenase, zinc-binding; (InterPro:IPR013149); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc00g023700 & NA & NA\\
## Solyc00g042840 & NA & NA\\
## Solyc00g047190 & NA & NA\\
## \addlinespace
## Solyc00g069880 & NA & NA\\
## Solyc00g094550 & NA & NA\\
## Solyc00g105750 & NA & NA\\
## Solyc00g112180 & NA & NA\\
## Solyc00g112190 & NA & NA\\
## \addlinespace
## Solyc00g212260 & NA & NA\\
## Solyc00g244280 & NA & NA\\
## Solyc00g304030 & NA & NA\\
## Solyc01g005880 & NA & NA\\
## Solyc01g007240 & NA & NA\\
## \addlinespace
## Solyc01g009390 & NA & NA\\
## Solyc01g009540 & NA & NA\\
## Solyc01g009800 & NA & NA\\
## Solyc01g011060 & ATMG00520 & hypothetical protein\\
## Solyc01g014990 & NA & NA\\
## \addlinespace
## Solyc01g016710 & NA & NA\\
## Solyc01g016950 & NA & NA\\
## Solyc01g017110 & NA & NA\\
## Solyc01g017230 & NA & NA\\
## Solyc01g017720 & NA & NA\\
## \addlinespace
## Solyc01g020170 & NA & NA\\
## Solyc01g044290 & NA & NA\\
## Solyc01g059970 & NA & NA\\
## Solyc01g060190 & NA & NA\\
## Solyc01g066180 & NA & NA\\
## \addlinespace
## Solyc01g068250 & AT3G51930 & transducin family protein / WD-40 repeat family protein; similar to transducin family protein / WD-40 repeat family protein [Arabidopsis thaliana] (TAIR:AT2G26490.1); similar to Os01g0946100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045381.1); similar to WD-40 repeat family protein [Musa acuminata] (GB:ABF70017.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc01g068490 & NA & NA\\
## Solyc01g068500 & AT3G54510 & early-responsive to dehydration protein-related / ERD protein-related; similar to HYP1 (HYPOTHETICAL PROTEIN 1) [Arabidopsis thaliana] (TAIR:AT3G01100.1); similar to Os01g0950900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045409.1); similar to Protein of unknown function DUF221 [Medicago truncatula] (GB:ABE79158.1); contains InterPro domain Protein of unknown function DUF221; (InterPro:IPR003864)\\
## Solyc01g068550 & NA & NA\\
## Solyc01g079370 & NA & NA\\
## \addlinespace
## Solyc01g079930 & NA & NA\\
## Solyc01g080450 & NA & NA\\
## Solyc01g081320 & AT5G27460 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G02150.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABD28679.1); similar to Os12g0527900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066910.1); similar to Os02g0796400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048388.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885)\\
## Solyc01g081340 & NA & NA\\
## Solyc01g087920 & AT3G63470 & SCPL40 (serine carboxypeptidase-like 40); serine carboxypeptidase; similar to SCPL39 (serine carboxypeptidase-like 39), serine carboxypeptidase [Arabidopsis thaliana] (TAIR:AT3G52020.1); similar to putative serine carboxypeptidase [Pisum sativum] (GB:CAC19488.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Peptidase S10, serine carboxypeptidase; (InterPro:IPR001563)\\
## \addlinespace
## Solyc01g088360 & AT2G16570 & Amidophosphoribosyltransferase (ATase: EC 2.4.2.14) is a key enzyme in the pathway of purine nucleotide biosynthesis\\
## Solyc01g089950 & NA & NA\\
## Solyc01g090580 & NA & NA\\
## Solyc01g094990 & AT4G23490 & fringe-related protein; similar to transferase, transferring glycosyl groups [Arabidopsis thaliana] (TAIR:AT4G11350.1); similar to fringe-related protein [Arabidopsis thaliana] (TAIR:AT5G41460.1); similar to hypothetical protein [Trifolium pratense] (GB:BAE71200.1); contains InterPro domain Protein of unknown function DUF604; (InterPro:IPR006740)\\
## Solyc01g097170 & NA & NA\\
## \addlinespace
## Solyc01g097430 & NA & NA\\
## Solyc01g097710 & NA & NA\\
## Solyc01g097720 & NA & NA\\
## Solyc01g098020 & AT3G22560 & GCN5-related N-acetyltransferase (GNAT) family protein; similar to GCN5-related N-acetyltransferase (GNAT) family protein [Arabidopsis thaliana] (TAIR:AT2G32020.1); similar to Os03g0794400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051539.1); similar to putative acetyltransferase [Oryza sativa (japonica cultivar-group)] (GB:AAO37986.1); similar to Os03g0664800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050839.1); contains InterPro domain GCN5-related N-acetyltransferase; (InterPro:IPR000182)\\
## Solyc01g098410 & AT3G21630 & protein kinase family protein; similar to protein kinase family protein / peptidoglycan-binding LysM domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G51940.1); similar to LysM domain-containing receptor-like kinase 7 [Medicago truncatula] (GB:AAQ73158.1); similar to Nod-factor receptor 1a [Lotus japonicus] (GB:CAE02589.1); similar to Nod-factor receptor 1b [Lotus japonicus] (GB:CAE02590.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Peptidoglycan-binding LysM; (InterPro:IPR002482)\\
## \addlinespace
## Solyc01g100600 & NA & NA\\
## Solyc01g102690 & AT3G49710 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G22070.1); similar to Os02g0106300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045627.1); similar to Os09g0251500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062682.1); similar to pentatricopeptide (PPR) repeat-containing protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD52598.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc01g102740 & NA & NA\\
## Solyc01g103240 & NA & NA\\
## Solyc01g103640 & AT4G24320 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G71850.1); similar to Protein of unknown function DUF860, plant [Medicago truncatula] (GB:ABE93198.1); contains InterPro domain Protein of unknown function DUF860, plant; (InterPro:IPR008578)\\
## \addlinespace
## Solyc01g103860 & AT1G09790 & phytochelatin synthetase-related; Identical to COBRA-like protein 6 precursor (COBL6) [Arabidopsis Thaliana] (GB:O04500); similar to phytochelatin synthetase family protein / COBRA cell expansion protein COBL3 [Arabidopsis thaliana] (TAIR:AT3G02210.1); similar to phytochelatin synthetase-like protein 2 [Sorghum bicolor] (GB:AAO17706.1); contains InterPro domain Phytochelatin synthetase-like conserved region; (InterPro:IPR006918)\\
## Solyc01g104030 & AT4G22200 & Encodes a photosynthate- and light-dependent inward rectifying potassium channel with unique gating properties that are regulated by phosphorylation. Expressed in guard cell protoplasts and in the phloem and xylem of aerial portions of the plant. The channel can coassemble with another K+ channel, KAT1, in vitro. In guard cells, AKT2/3 is responsible for the Ca2+ sensitivity of the K+ uptake channel. In the phloem, it regulates the sucrose/H+ symporters via the phloem potential.\\
## Solyc01g104090 & NA & NA\\
## Solyc01g104790 & NA & NA\\
## Solyc01g107490 & NA & NA\\
## \addlinespace
## Solyc01g108570 & NA & NA\\
## Solyc01g108950 & NA & NA\\
## Solyc01g109100 & NA & NA\\
## Solyc01g110070 & NA & NA\\
## Solyc01g112300 & AT4G35440 & CLC-e chloride channel protein\\
## \addlinespace
## Solyc02g005270 & NA & NA\\
## Solyc02g011840 & NA & NA\\
## Solyc02g020900 & NA & NA\\
## Solyc02g030220 & NA & NA\\
## Solyc02g031790 & NA & NA\\
## \addlinespace
## Solyc02g032320 & ATCG01010 & Chloroplast encoded NADH dehydrogenase unit.\\
## Solyc02g036380 & AT5G17290 & Autophagy protein ATG5. Forms a conjugate with ATG12 with an essential role in plant nutrient recycling. Mutants missing ATG5 display early senescence and are hypersensitive to nitrogen or carbon starvation, accompanied by a more rapid loss of organellar and cytoplasmic proteins.\\
## Solyc02g043820 & NA & NA\\
## Solyc02g062380 & NA & NA\\
## Solyc02g062630 & AT1G71420 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G09950.1); similar to PPR1106-17 [Physcomitrella patens] (GB:BAD67156.2); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc02g067140 & NA & NA\\
## Solyc02g067690 & AT2G16890 & UDP-glucoronosyl/UDP-glucosyl transferase family protein; similar to transferase, transferring glycosyl groups [Arabidopsis thaliana] (TAIR:AT5G14860.1); similar to Os09g0329200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062897.1); similar to putative UDP-glucose glucosyltransferase [Oryza sativa (japonica cultivar-group)] (GB:BAD54417.1); similar to OSIGBa0144J05.6 [Oryza sativa (indica cultivar-group)] (GB:CAH66194.1); contains InterPro domain Tudor; (InterPro:IPR002999)\\
## Solyc02g068200 & AT3G27010 & Belongs to a TCP protein transcription factor family. Members of this family contain a predicted basic-helix-loop-helix domain involved in DNA binding. Related to rice PCF1 and PCF2 genes. Binds to the GCCCR element of CYCB1;1. Involved in regulation of expression of cell cycle control and ribosomal protein genes.\\
## Solyc02g069270 & NA & NA\\
## Solyc02g072330 & NA & NA\\
## \addlinespace
## Solyc02g076670 & NA & NA\\
## Solyc02g077290 & NA & NA\\
## Solyc02g079160 & NA & NA\\
## Solyc02g079180 & NA & NA\\
## Solyc02g079260 & AT4G13650 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G09950.1); similar to pentatricopeptide, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA99524.2); similar to PPR1106-17 [Physcomitrella patens] (GB:BAD67156.2); similar to PPR986-12 [Physcomitrella patens] (GB:BAD67155.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc02g079350 & AT4G05120 & Encodes an equilibrative nucleoside transporter AtENT3. Mutations of this locus allow mutants to grow on uridine analogue fluorouridine.\\
## Solyc02g079360 & NA & NA\\
## Solyc02g079640 & NA & NA\\
## Solyc02g080200 & AT1G11580 & pectin methylesterase, putative; similar to pectin methylesterase, putative [Arabidopsis thaliana] (TAIR:AT1G11590.1); similar to pectin methylesterase [Sesbania rostrata] (GB:CAD29733.1); contains InterPro domain Virulence factor, pectin lyase fold; (InterPro:IPR011050); contains InterPro domain Plant invertase/pectin methylesterase inhibitor; (InterPro:IPR007186); contains InterPro domain Pectinesterase; (InterPro:IPR000070); contains InterPro domain Pectinesterase inhibitor; (InterPro:IPR006501)\\
## Solyc02g080480 & AT3G21690 & MATE efflux family protein; similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G11670.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G61890.1); similar to MATE efflux family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97209.1); similar to MATE efflux family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97220.1); similar to putative MATE efflux family protein [Oryza sativa (japonica cultivar-group)] (GB:AAS01962.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## \addlinespace
## Solyc02g081080 & AT1G62330 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G11990.1); similar to putative auxin-independent growth promoter [Oryza sativa (japonica cultivar-group)] (GB:BAD37877.1); contains InterPro domain Protein of unknown function DUF246, plant; (InterPro:IPR004348)\\
## Solyc02g081370 & AT1G66120 & acyl-activating enzyme 11 (AAE11); similar to AMP-dependent synthetase and ligase family protein [Arabidopsis thaliana] (TAIR:AT1G68270.1); similar to AMP-dependent synthetase and ligase family protein [Arabidopsis thaliana] (TAIR:AT1G65880.1); similar to acyl-activating enzyme 12 (AAE12) [Arabidopsis thaliana] (TAIR:AT1G65890.1); similar to Os09g0555800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063895.1); similar to AMP-binding enzyme, putative [Medicago truncatula] (GB:ABE77669.1); similar to Os03g0130100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048852.1); contains InterPro domain AMP-dependent synthetase and ligase; (InterPro:IPR000873)\\
## Solyc02g081550 & AT5G15250 & Encodes an FtsH protease that is localized to the chloroplast. AtFtsH6 is involved in the degradation of both Lhcb3 and Lhcb1 during senescence and high-light acclimation.\\
## Solyc02g084090 & NA & NA\\
## Solyc02g084680 & AT3G51060 & A member of SHI gene family. Arabidopsis thaliana has ten members that encode proteins with a RING finger-like zinc finger motif. Despite being highly divergent in sequence, many of the SHI-related genes are partially redundant in function and synergistically promote gynoecium, stamen and leaf development in Arabidopsis. STY1/STY2 double mutants showed defective style, stigma as well as serrated leaves.\\
## \addlinespace
## Solyc02g086340 & AT5G16210 & HEAT repeat-containing protein; similar to Os01g0514300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043188.1); similar to Unknown (protein for MGC:146562) [Xenopus tropicalis] (GB:AAI24572.1); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain Lissencephaly type-1-like homology motif; (InterPro:IPR006594); contains InterPro domain HEAT; (InterPro:IPR000357)\\
## Solyc02g086580 & AT3G27730 & DNA helicase required for interference-sensitive meiotic crossover events.\\
## Solyc02g087370 & AT5G15020 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G01320.1); similar to paired amphipathic helix repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G70060.1); similar to ATSIN3/SIN3 (Arabidopsis thaliana sin3 homolog) [Arabidopsis thaliana] (TAIR:AT1G24190.1); similar to transcriptional repressor protein-related [Musa balbisiana] (GB:ABF70137.1); similar to paired amphipathic helix repeat-containing protein / transcription regulator-related [Musa acuminata] (GB:ABF70056.1); similar to Paired amphipathic helix [Medicago truncatula] (GB:ABE86951.1); contains InterPro domain Histone deacetylase interacting; (InterPro:IPR013194); contains InterPro domain Paired amphipathic helix; (InterPro:IPR003822)\\
## Solyc02g087670 & AT5G15110 & pectate lyase family protein; Identical to Putative pectate lyase 19 precursor (EC 4.2.2.2) [Arabidopsis Thaliana] (GB:Q9LFP5); similar to pectate lyase family protein [Arabidopsis thaliana] (TAIR:AT3G01270.1); similar to Pectate lyase, N-terminal; Pectolytic enzyme, Pectin lyase fold [Medicago truncatula] (GB:ABE84460.1); contains InterPro domain Virulence factor, pectin lyase fold; (InterPro:IPR011050); contains InterPro domain Pectate lyase/Amb allergen; (InterPro:IPR002022); contains InterPro domain Pectate lyase, N-terminal; (InterPro:IPR007524); contains InterPro domain Pectolytic enzyme, Pectin lyase fold; (InterPro:IPR012334)\\
## Solyc02g087860 & NA & NA\\
## \addlinespace
## Solyc02g089660 & NA & NA\\
## Solyc02g090560 & NA & NA\\
## Solyc02g091010 & AT1G10390 & nucleoporin family protein; similar to nucleoporin family protein [Arabidopsis thaliana] (TAIR:AT1G59660.1); similar to Os12g0166000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066246.1); similar to Nucleoporin autopeptidase family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95896.1); similar to Nucleoporin autopeptidase family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95894.2); contains InterPro domain Peptidase S59, nucleoporin; (InterPro:IPR007230)\\
## Solyc02g091130 & AT5G08680 & ATP synthase beta chain, mitochondrial, putative; Identical to ATP synthase subunit beta-3, mitochondrial precursor (EC 3.6.3.14) [Arabidopsis Thaliana] (GB:Q9C5A9); similar to ATP synthase beta chain 1, mitochondrial [Arabidopsis thaliana] (TAIR:AT5G08670.1); similar to ATP synthase beta chain 2, mitochondrial [Arabidopsis thaliana] (TAIR:AT5G08690.1); similar to ATP synthase subunit beta, mitochondrial precursor (GB:P19023); similar to ATP synthase subunit beta, mitochondrial precursor (GB:P29685); similar to ATP synthase subunit beta, mitochondrial precursor (GB:P17614); contains InterPro domain ATPase, F1 complex, beta subunit; (InterPro:IPR005722); contains InterPro domain ATPase, F1/V1/A1 complex, alpha/beta subunit, N-terminal; (InterPro:IPR004100); contains InterPro domain ATPase, F1/V1/A1 complex, alpha/beta subunit, nucleotide-binding; (InterPro:IPR000194); contains InterPro domain ATPase, F1/V1/A1 complex, alpha/beta subunit, C-terminal; (InterPro:IPR000793); contains InterPro domain AAA ATPase; (InterPro:IPR003593)\\
## Solyc02g091500 & AT5G37770 & Encodes a protein with 40% similarity to calmodulin. Binds Ca(2+) and, as a consequence, undergoes conformational changes. CML24 expression occurs in all major organs, and transcript levels are increased from 2- to 15-fold in plants subjected to touch, darkness, heat, cold, hydrogen peroxide, abscisic acid (ABA), and indole-3-acetic acid. However, CML24 protein accumulation changes were not detectable. The putative CML24 regulatory region confers reporter expression at sites of predicted mechanical stress; in regions undergoing growth; in vascular tissues and various floral organs; and in stomata, trichomes, and hydathodes. CML24-underexpressing transgenics are resistant to ABA inhibition of germination and seedling growth, are defective in long-day induction of flowering, and have enhanced tolerance to CoCl(2), molybdic acid, ZnSO(4), and MgCl(2).\\
## \addlinespace
## Solyc02g094620 & NA & NA\\
## Solyc03g005540 & NA & NA\\
## Solyc03g006660 & AT1G11390 & ABC1 family protein; similar to ABC1 family protein [Arabidopsis thaliana] (TAIR:AT1G61640.1); similar to H0112G12.2 [Oryza sativa (indica cultivar-group)] (GB:CAH67057.1); similar to putative 62.8 kDa protein [Oryza sativa (japonica cultivar-group)] (GB:AAL87193.1); similar to Protein kinase-like [Medicago truncatula] (GB:ABD32343.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain ABC-1; (InterPro:IPR004147)\\
## Solyc03g013270 & NA & NA\\
## Solyc03g013610 & NA & NA\\
## \addlinespace
## Solyc03g019750 & AT3G08900 & Encodes a reversible autoglycosylated protein peripherally associated with cell membranes. Highly expressed in roots ans suspension-cultured cells.\\
## Solyc03g025260 & NA & NA\\
## Solyc03g025290 & AT4G25620 & hydroxyproline-rich glycoprotein family protein; similar to hydroxyproline-rich glycoprotein family protein [Arabidopsis thaliana] (TAIR:AT5G52430.1); similar to Os02g0822000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048555.1); similar to unknown [Thellun (GB:ABJ98061.1)\\
## Solyc03g025390 & AT4G23420 & short-chain dehydrogenase/reductase (SDR) family protein; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT4G23430.2); similar to short-chain dehydrogenase Tic32 [Pisum sativum] (GB:AAS38575.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc03g025850 & NA & NA\\
## \addlinespace
## Solyc03g026120 & AT2G45750 & dehydration-responsive family protein; similar to dehydration-responsive family protein [Arabidopsis thaliana] (TAIR:AT4G00750.1); similar to dehydration-responsive family protein [Arabidopsis thaliana] (TAIR:AT4G10440.1); similar to dehydration-responsive family protein [Arabidopsis thaliana] (TAIR:AT1G33170.1); similar to dehydration-responsive protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD67956.1); similar to Generic methyltransferase [Medicago truncatula] (GB:ABE86303.1); similar to Generic methyltransferase [Medicago truncatula] (GB:ABE88265.1); contains InterPro domain Protein of unknown function DUF248, methyltransferase putative; (InterPro:IPR004159); contains InterPro domain Generic methyltransferase; (InterPro:IPR001601)\\
## Solyc03g026350 & AT4G25440 & ZFWD1 (zinc finger WD40 repeat protein 1); nucleic acid binding / zinc ion binding; similar to WD-40 repeat family protein / zfwd2 protein (ZFWD2), putative [Arabidopsis thaliana] (TAIR:AT5G51980.1); similar to Os02g0677700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047729.1); similar to Os03g0145600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048950.1); similar to hypothetical protein DDBDRAFT_0187121 [Dictyostelium discoideum AX4] (GB:XP_637649.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain Zinc finger, CCCH-type; (InterPro:IPR000571)\\
## Solyc03g033490 & NA & NA\\
## Solyc03g033510 & AT5G66200 & armadillo/beta-catenin repeat family protein; similar to armadillo/beta-catenin repeat family protein [Arabidopsis thaliana] (TAIR:AT4G36030.1); similar to armadillo/beta-catenin repeat family protein [Arabidopsis thaliana] (TAIR:AT4G34940.1); similar to IMP dehydrogenase/GMP reductase [Medicago truncatula] (GB:ABE92291.1); similar to Armadillo [Medicago truncatula] (GB:ABE77933.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAD34223.1); contains InterPro domain Armadillo; (InterPro:IPR000225); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989)\\
## Solyc03g034060 & NA & NA\\
## \addlinespace
## Solyc03g034230 & NA & NA\\
## Solyc03g051920 & AT5G06610 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G27690.1); similar to Lipase, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA99131.1); contains InterPro domain Protein of unknown function DUF620; (InterPro:IPR006873)\\
## Solyc03g058370 & NA & NA\\
## Solyc03g063490 & NA & NA\\
## Solyc03g063940 & NA & NA\\
## \addlinespace
## Solyc03g078730 & NA & NA\\
## Solyc03g081290 & NA & NA\\
## Solyc03g082790 & NA & NA\\
## Solyc03g083150 & NA & NA\\
## Solyc03g093490 & AT5G07590 & WD-40 repeat protein family; similar to WD-repeat protein [Capsella rubella] (GB:AAR15466.1); similar to WD-repeat protein [Brassica oleracea] (GB:AAR13700.1); similar to WD-repeat protein [Sisymbrium irio] (GB:AAR15437.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## \addlinespace
## Solyc03g093710 & NA & NA\\
## Solyc03g096270 & NA & NA\\
## Solyc03g098010 & AT3G17790 & ATACP5 (acid phosphatase 5); acid phosphatase/ protein serine/threonine phosphatase; similar to ATPAP3/PAP3 (purple acid phosphatase 3), acid phosphatase/ protein serine/threonine phosphatase [Arabidopsis thaliana] (TAIR:AT1G14700.1); similar to putative acid phosphatase [Lupinus luteus] (GB:CAE85073.1); contains InterPro domain Acid phosphatase, type 5; (InterPro:IPR012007); contains InterPro domain Metallophosphoesterase; (InterPro:IPR004843)\\
## Solyc03g098420 & AT3G02010 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G27610.1); similar to Pentatricopeptide repeat domain containing protein, putative [Solanum demissum] (GB:AAU90328.2); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAD45498.1); similar to P0402A09.8 [Oryza sativa (japonica cultivar-group)] (GB:BAB62625.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc03g111120 & AT5G03860 & Encodes a protein with malate synthase activity.\\
## \addlinespace
## Solyc03g111160 & AT3G52180 & Encodes a plant-specific protein phosphatase that contains a protein tyrosine phosphatase (PTP) catalytic domain and a kinase interaction sequence (KIS) domain. This protein interacts with the plant SnRK AKIN11. Binds starch. Localized in the chloroplast.\\
## Solyc03g112010 & AT3G48320 & putative cytochrome P450\\
## Solyc03g112930 & NA & NA\\
## Solyc03g113820 & AT5G13690 & alpha-N-acetylglucosaminidase family / NAGLU family; similar to alpha-N-acetylglucosaminidase [Nicotiana tabacum] (GB:CAA77084.1); similar to OSJNBb0059K02.16 [Oryza sativa (japonica cultivar-group)] (GB:CAE04506.2); contains InterPro domain Alpha-N-acetylglucosaminidase; (InterPro:IPR007781)\\
## Solyc03g114770 & NA & NA\\
## \addlinespace
## Solyc03g119580 & NA & NA\\
## Solyc03g119820 & AT3G18570 & glycine-rich protein / oleosin; similar to glycine-rich protein / oleosin [Arabidopsis thaliana] (TAIR:AT1G48990.1); similar to OLE-5 [Coffea canephora] (GB:AAX49393.1); contains InterPro domain Oleosin; (InterPro:IPR000136)\\
## Solyc03g121000 & NA & NA\\
## Solyc03g121400 & NA & NA\\
## Solyc03g122230 & NA & NA\\
## \addlinespace
## Solyc04g006930 & NA & NA\\
## Solyc04g008060 & AT2G01770 & Encodes an iron transporter required for iron sequestration into vacuoles. Expressed in developing embryo and seed. Localized in the vacuolar membrane.\\
## Solyc04g008400 & NA & NA\\
## Solyc04g009620 & AT1G48850 & EMB1144 (EMBRYO DEFECTIVE 1144); chorismate synthase; Identical to Chorismate synthase, chloroplast precursor (EC 4.2.3.5) (5- enolpyruvylshikimate-3-phosphate phospholyase) [Arabidopsis Thaliana] (GB:P57720;GB:Q570J9;GB:Q93ZI3); similar to 3-phosphoshikimate 1-carboxyvinyltransferase, putative / 5-enolpyruvylshikimate-3-phosphate, putative / EPSP synthase, putative [Arabidopsis thaliana] (TAIR:AT1G48860.1); similar to Chorismate synthase 1, chloroplast precursor (5-enolpyruvylshikimate-3-phosphate phospholyase 1) (GB:Q42884); similar to putative chorismate synthase [Fagus sylvatica] (GB:ABA54870.1); similar to Chorismate synthase, chloroplast precursor (5-enolpyruvylshikimate-3-phosphate phospholyase) (GB:P27793); contains InterPro domain Chorismate synthase; (InterPro:IPR000453)\\
## Solyc04g011440 & AT3G12580 & HSP70 (heat shock protein 70); ATP binding; similar to heat shock cognate 70 kDa protein 3 (HSC70-3) (HSP70-3) [Arabidopsis thaliana] (TAIR:AT3G09440.1); similar to heat shock cognate 70 kDa protein 2 (HSC70-2) (HSP70-2) [Arabidopsis thaliana] (TAIR:AT5G02490.1); similar to HSC70-1 (heat shock cognate 70 kDa protein 1), ATP binding [Arabidopsis thaliana] (TAIR:AT5G02500.1); similar to heat shock protein 70-3 [Nicotiana tabacum] (GB:AAR17080.1); similar to high molecular weight heat shock protein [Malus x domestica] (GB:AAF34134.1); similar to 70 kDa heat shock cognate protein 1 [Vigna radiata] (GB:AAS57912.1); contains InterPro domain Heat shock protein Hsp70; (InterPro:IPR001023); contains InterPro domain Heat shock protein 70; (InterPro:IPR013126)\\
## \addlinespace
## Solyc04g014740 & AT1G12060 & A member of Arabidopsis BAG (Bcl-2-associated athanogene) proteins, plant homologs of mammalian regulators of apoptosis. Plant BAG proteins are multi-functional and remarkably similar to their animal counterparts, as they regulate apoptotic-like processes ranging from pathogen attack, to abiotic stress, to plant development.\\
## Solyc04g016140 & NA & NA\\
## Solyc04g016190 & NA & NA\\
## Solyc04g016320 & NA & NA\\
## Solyc04g016570 & NA & NA\\
## \addlinespace
## Solyc04g024630 & NA & NA\\
## Solyc04g039940 & AT2G35030 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G02750.1); similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G09410.1); similar to hypothetical protein LOC_Os11g24530 [Oryza sativa (japonica cultivar-group)] (GB:AAX92992.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc04g047680 & NA & NA\\
## Solyc04g047730 & NA & NA\\
## Solyc04g049900 & NA & NA\\
## \addlinespace
## Solyc04g050780 & NA & NA\\
## Solyc04g055080 & AT5G10190 & transporter-related; similar to UNE2 (unfertilized embryo sac 2), carbohydrate transporter/ sugar porter [Arabidopsis thaliana] (TAIR:AT1G78130.1); similar to 4D11_20 [Brassica rapa subsp. pekinensis] (GB:AAZ67534.1); contains InterPro domain Major facilitator superfamily; (InterPro:IPR007114); contains InterPro domain Major facilitator superfamily MFS_1; (InterPro:IPR011701)\\
## Solyc04g057980 & AT4G37925 & Encodes subunit NDH-M of NAD(P)H:plastoquinone dehydrogenase complex (Ndh complex) present in the thylakoid membrane of chloroplasts. This subunit is thought to be required for Ndh complex assembly.\\
## Solyc04g064740 & AT1G48880 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G06080.2); similar to Os01g0880400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044993.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABA91480.2); similar to Os05g0426300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055601.1); contains InterPro domain Protein of unknown function DUF231, plant; (InterPro:IPR004253)\\
## Solyc04g071260 & AT3G12110 & Encodes an actin that is expressed predominantly during reproductive development.\\
## \addlinespace
## Solyc04g071400 & AT1G43650 & integral membrane family protein / nodulin MtN21-related; similar to nodulin MtN21 family protein [Arabidopsis thaliana] (TAIR:AT5G64700.1); similar to Protein of unknown function DUF6, transmembrane [Medicago truncatula] (GB:ABE81602.1); similar to Os05g0106200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054417.1); similar to Os12g0518200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066899.1); contains InterPro domain Protein of unknown function DUF6, transmembrane; (InterPro:IPR000620)\\
## Solyc04g071910 & NA & NA\\
## Solyc04g075010 & NA & NA\\
## Solyc04g079750 & AT1G47578 & NA\\
## Solyc04g079810 & NA & NA\\
## \addlinespace
## Solyc04g080270 & NA & NA\\
## Solyc04g081400 & AT1G47840 & Encodes a putative hexokinase.\\
## Solyc05g005860 & NA & NA\\
## Solyc05g006340 & AT1G24130 & transducin family protein / WD-40 repeat family protein; similar to transducin family protein / WD-40 repeat family protein [Arabidopsis thaliana] (TAIR:AT5G50120.1); similar to WD40-like [Medicago truncatula] (GB:ABE82381.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc05g006450 & AT1G15000 & SCPL50 (serine carboxypeptidase-like 50); serine carboxypeptidase; similar to SCPL47 (serine carboxypeptidase-like 47), serine carboxypeptidase [Arabidopsis thaliana] (TAIR:AT5G22980.1); similar to carboxypeptidase, vitellogenic-like [Xenopus tropicalis] (GB:NP_001016807.1); similar to Os01g0215100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042394.1); similar to Os05g0582800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056442.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Peptidase S10, serine carboxypeptidase; (InterPro:IPR001563)\\
## \addlinespace
## Solyc05g007610 & NA & NA\\
## Solyc05g008990 & NA & NA\\
## Solyc05g009400 & NA & NA\\
## Solyc05g012870 & AT1G69430 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G26650.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAC55692.1)\\
## Solyc05g013260 & NA & NA\\
## \addlinespace
## Solyc05g013360 & NA & NA\\
## Solyc05g014110 & AT3G47590 & esterase/lipase/thioesterase family protein; similar to esterase/lipase/thioesterase family protein [Arabidopsis thaliana] (TAIR:AT1G29840.1); similar to esterase/lipase/thioesterase family protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD44964.1); similar to Os01g0579900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043402.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379)\\
## Solyc05g016650 & NA & NA\\
## Solyc05g017800 & NA & NA\\
## Solyc05g017810 & NA & NA\\
## \addlinespace
## Solyc05g017930 & NA & NA\\
## Solyc05g018270 & NA & NA\\
## Solyc05g018460 & NA & NA\\
## Solyc05g021080 & NA & NA\\
## Solyc05g026230 & NA & NA\\
## \addlinespace
## Solyc05g044620 & NA & NA\\
## Solyc05g047710 & AT3G61050 & calcium-dependent lipid-binding protein, putative; similar to C2 domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G61030.1); similar to C2 domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G60950.1); similar to Os07g0409100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059439.1); similar to CLB1 [Solanum lycopersicum] (GB:BAA24382.1); contains InterPro domain C2; (InterPro:IPR000008); contains InterPro domain C2 calcium/lipid-binding region, CaLB; (InterPro:IPR008973)\\
## Solyc05g050650 & NA & NA\\
## Solyc05g052520 & AT2G40180 & protein phosphatase 2C, putative / PP2C, putative; similar to protein phosphatase 2C, putative / PP2C, putative [Arabidopsis thaliana] (TAIR:AT2G30020.1); similar to protein phosphatase 2C, putative / PP2C, putative [Arabidopsis thaliana] (TAIR:AT1G07160.1); similar to protein phosphatase 2C [Nicotiana benthamiana] (GB:BAE44121.1); similar to Avr9/Cf-9 rapidly elicited protein 284 [Nicotiana tabacum] (GB:AAP03883.1); contains InterPro domain Protein phosphatase 2C; (InterPro:IPR000222); contains InterPro domain Protein phosphatase 2C-like; (InterPro:IPR001932)\\
## Solyc05g054670 & AT3G55350 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G63270.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABA95488.2); similar to Os11g0702700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001068533.1); contains InterPro domain Trp repressor/replication initiator; (InterPro:IPR010921)\\
## \addlinespace
## Solyc06g008000 & NA & NA\\
## Solyc06g009370 & NA & NA\\
## Solyc06g009800 & AT1G74630 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G29760.1); similar to Asp/Glu racemase; Tetratricopeptide-like helical [Medicago truncatula] (GB:ABE83029.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc06g034220 & AT3G60600 & Encodes VAP27 (for Vesicle-Associated Protein). VAP27 has high homology to the VAP33 family of SNARE-like proteins from animals. May be involved in vesicular transport to or from the ER. Located exclusively in limiting membrane of protein storage vacuoles. Binds SRC2.\\
## Solyc06g034310 & NA & NA\\
## \addlinespace
## Solyc06g035480 & NA & NA\\
## Solyc06g036060 & NA & NA\\
## Solyc06g043060 & NA & NA\\
## Solyc06g043140 & AT5G17290 & Autophagy protein ATG5. Forms a conjugate with ATG12 with an essential role in plant nutrient recycling. Mutants missing ATG5 display early senescence and are hypersensitive to nitrogen or carbon starvation, accompanied by a more rapid loss of organellar and cytoplasmic proteins.\\
## Solyc06g048690 & NA & NA\\
## \addlinespace
## Solyc06g048900 & AT2G40720 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G21300.1); similar to PPR986-12 [Physcomitrella patens] (GB:BAD67155.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc06g050320 & NA & NA\\
## Solyc06g050910 & NA & NA\\
## Solyc06g054390 & AT4G14240 & similar to CBS domain-containing protein-related [Arabidopsis thaliana] (TAIR:AT4G14230.1); similar to Os05g0395300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055462.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAT07635.1); contains InterPro domain Protein of unknown function DUF21; (InterPro:IPR002550); contains InterPro domain CBS; (InterPro:IPR000644)\\
## Solyc06g060230 & AT1G01720 & belongs to a large family of putative transcriptional activators with NAC domain. Transcript level increases in response to wounding.\\
## \addlinespace
## Solyc06g060830 & AT4G16780 & ATHB-2 (Homeobox-leucine zipper protein HAT4); DNA binding / transcription factor; Identical to Homeobox-leucine zipper protein HAT4 (Homeodomain-leucine zipper protein HAT4) (HD-ZIP protein 4) (Homeodomain transcription factor ATHB-2) (HD-ZIP protein ATHB-2) (HAT4) [Arabidopsis Thaliana] (GB:Q05466); similar to HAT2, transcription factor [Arabidopsis thaliana] (TAIR:AT5G47370.1); similar to hypothetical protein [Capsella rubella] (GB:CAB96199.1); contains InterPro domain Homeodomain-related; (InterPro:IPR012287); contains InterPro domain Homeobox; (InterPro:IPR001356); contains InterPro domain Leucine zipper, homeobox-associated; (InterPro:IPR003106); contains InterPro domain Homeodomain-like; (InterPro:IPR009057); contains InterPro domain Helix-turn-helix motif, lambda-like repressor; (InterPro:IPR000047); contains InterPro domain HD-ZIP protein, N-terminal; (InterPro:IPR006712)\\
## Solyc06g060960 & NA & NA\\
## Solyc06g062960 & NA & NA\\
## Solyc06g063150 & NA & NA\\
## Solyc06g065910 & NA & NA\\
## \addlinespace
## Solyc06g071060 & AT3G03980 & short-chain dehydrogenase/reductase (SDR) family protein; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT3G04000.1); similar to short chain dehydrogenase [Solanum tuberosum] (GB:BAE46415.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc06g071710 & NA & NA\\
## Solyc06g071950 & AT1G76340 & integral membrane family protein; similar to integral membrane family protein [Arabidopsis thaliana] (TAIR:AT5G19980.1); similar to Os03g0215000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049374.1); similar to integral membrane family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF94634.1); contains domain SOLUTE CARRIER FAMILY 35 (PTHR11132); contains domain SOLUTE CARRIER FAMILY 35 (PTHR11132:SF11)\\
## Solyc06g072610 & AT3G26935 & zinc finger (DHHC type) family protein; similar to zinc finger (DHHC type) family protein [Arabidopsis thaliana] (TAIR:AT5G41060.1); similar to Os09g0508300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063622.1); similar to Os08g0535400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062355.1); similar to P0482D04.5 [Oryza sativa (japonica cultivar-group)] (GB:BAB89658.1); contains InterPro domain Zinc finger, DHHC-type; (InterPro:IPR001594)\\
## Solyc06g074240 & AT3G10230 & Encodes a protein with lycopene β-cyclase activity. This enzyme uses the linear, symmetrical lycopene as substrate. However, unlike the ε-cyclase which adds only one ring, the β-cyclase introduces a ring at both ends of lycopene to form the bicyclic β-carotene.\\
## \addlinespace
## Solyc06g076020 & AT5G02500 & encodes a member of heat shock protein 70 family.\\
## Solyc06g082000 & AT3G08510 & Phosphoinositide-specific phospholipase C (PI-PLC), catalyzes hydrolysis of phosphatidylinositol 4,5-bisphosphate into inositol 1,4,5-trisphosphate and diacylglycerol.\\
## Solyc06g082060 & NA & NA\\
## Solyc06g083860 & NA & NA\\
## Solyc07g005070 & NA & NA\\
## \addlinespace
## Solyc07g006020 & AT4G30850 & heptahelical transmembrane protein homologous to human adiponectin receptors and progestin receptors\\
## Solyc07g007690 & AT5G33280 & chloride channel-like (CLC) protein, putative; Identical to Putative chloride channel-like protein CLC-g [Arabidopsis Thaliana] (GB:P60300); similar to CLC-C (chloride channel C), anion channel/ voltage-gated chloride channel [Arabidopsis thaliana] (TAIR:AT5G49890.1); similar to ATCLC-A (CHLORIDE CHANNEL A), anion channel/ voltage-gated chloride channel [Arabidopsis thaliana] (TAIR:AT5G40890.1); similar to CLC-B (chloride channel protein B), anion channel/ voltage-gated chloride channel [Arabidopsis thaliana] (TAIR:AT3G27170.1); similar to Cl- channel, voltage gated; IMP dehydrogenase related 1 [Medicago truncatula] (GB:ABE86345.1); similar to chloride channel-like protein [Oryza sativa (japonica cultivar-group)] (GB:ABB86548.1); similar to H0413E07.11 [Oryza sativa (indica cultivar-group)] (GB:CAJ86158.1); contains InterPro domain Cl- channel, voltage gated; (InterPro:IPR001807); contains InterPro domain Chloride channel plant CLC; (InterPro:IPR002251); contains InterPro domain CBS; (InterPro:IPR000644)\\
## Solyc07g017610 & AT4G33150 & LKR (SACCHAROPINE DEHYDROGENASE); Identical to Alpha-aminoadipic semialdehyde synthase (LKR/SDH) (cAt-LKR/SDH) [Includes: Lysine ketoglutarate reductase (EC 1.5.1.8) (LKR); Saccharopine dehydrogenase (EC 1.5.1.9) (SDH) (cAt-SDH)] (LKR/SDH) [Arabidopsis Thaliana] (GB:Q9SMZ4;GB:O04155;GB:O04156;GB:O04884;GB:Q7DM71;GB:Q947M5;GB:Q94BT4); similar to bifunctional lysine-ketoglutarate reductase/saccharopine dehydrogenase [Gossypium hirsutum] (GB:AAN14410.1); similar to lysine ketoglutarate reductase/saccharopine dehydrogenase biofunctional enzyme [Zizania latifolia] (GB:ABF18958.1); similar to lysine ketoglutarate reductase/saccharopine dehydrogenase [Zea mays] (GB:AAG21985.1); contains InterPro domain Alanine dehydrogenase/PNT, C-terminal; (InterPro:IPR007698); contains InterPro domain Saccharopine dehydrogenase; (InterPro:IPR005097); contains InterPro domain LOR/SDH bifunctional enzyme conserved region; (InterPro:IPR007545); contains InterPro domain Alanine dehydrogenase/PNT, N-terminal; (InterPro:IPR007886)\\
## Solyc07g017790 & NA & NA\\
## Solyc07g041390 & NA & NA\\
## \addlinespace
## Solyc07g041780 & AT2G06010 & encodes a novel protein whose expression level is induced in lines overexpressing salicylic-acid (SA)-inducible Arabidopsis DNA binding with one finger (Dof) transcription factor, called OBF-binding protein 3.\\
## Solyc07g042120 & NA & NA\\
## Solyc07g042350 & NA & NA\\
## Solyc07g042630 & AT2G07050 & Involved in the biosynthesis of brassinosteroids. Catalyzes the reaction from epoxysqualene to cycloartenol.\\
## Solyc07g042790 & NA & NA\\
## \addlinespace
## Solyc07g043190 & NA & NA\\
## Solyc07g045410 & NA & NA\\
## Solyc07g045460 & AT4G16360 & 5'-AMP-activated protein kinase beta-2 subunit, putative; Identical to SNF1-related protein kinase regulatory subunit beta-2 (AKIN beta2) (AKINB2) (KINB2) [Arabidopsis Thaliana] (GB:Q9SCY5;GB:O23481); similar to 5'-AMP-activated protein kinase beta-2 subunit, putative [Arabidopsis thaliana] (TAIR:AT5G21170.1); similar to AKIN beta2 [Medicago truncatula] (GB:AAO61677.1); contains InterPro domain 5-AMP-activated protein kinase, beta subunit, complex-interacting region; (InterPro:IPR006828)\\
## Solyc07g049400 & NA & NA\\
## Solyc07g049690 & AT4G15440 & Encodes a hydroperoxide lyase. Also a member of the CYP74B cytochrome p450 family. In the ecotype Columbia (Col) the gene contains a 10-nucleotide deletion in its first exon that causes it to code for a truncated protein that results in a non-functional hydroperoxide lyase.\\
## \addlinespace
## Solyc07g052100 & AT1G05120 & SNF2 domain-containing protein / helicase domain-containing protein / RING finger domain-containing protein; similar to DNA repair protein, putative [Arabidopsis thaliana] (TAIR:AT1G02670.1); similar to putative DNA repair protein rhp16 [Oryza sativa (japonica cultivar-group)] (GB:BAD31171.1); similar to Os07g0511500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059763.1); contains InterPro domain DEAD/DEAH box helicase, N-terminal; (InterPro:IPR011545); contains InterPro domain SNF2-related; (InterPro:IPR000330); contains InterPro domain Helicase, C-terminal; (InterPro:IPR001650); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc07g052770 & NA & NA\\
## Solyc07g052790 & NA & NA\\
## Solyc07g052850 & NA & NA\\
## Solyc07g053040 & NA & NA\\
## \addlinespace
## Solyc07g053520 & NA & NA\\
## Solyc07g054560 & NA & NA\\
## Solyc07g054830 & AT2G20900 & diacylglycerol kinase, putative; similar to diacylglycerol kinase accessory domain-containing protein [Arabidopsis thaliana] (TAIR:AT4G28130.1); similar to calmodulin-binding diacylglycerol kinase [Lycopersicon esculentum] (GB:AAG23128.1); similar to diacylglycerol kinase variant A [Lycopersicon esculentum] (GB:AAG23130.1); similar to diacylglycerol kinase variant B [Lycopersicon esculentum] (GB:AAG23131.1); contains InterPro domain Diacylglycerol kinase accessory region; (InterPro:IPR000756); contains InterPro domain Diacylglycerol kinase, catalytic region; (InterPro:IPR001206)\\
## Solyc07g055270 & NA & NA\\
## Solyc07g055710 & NA & NA\\
## \addlinespace
## Solyc07g056500 & AT1G78380 & Encodes a glutathione transferase that is a member of Tau GST gene family. Expression is induced by drought stress, oxidative stress, and high doses of auxin and cytokinin. naming convention according to Wagner et al. (2002) The expression of this gene is upregulated by herbicide safeners such as benoxacor and fenclorim.\\
## Solyc07g063500 & AT3G13682 & amine oxidase family protein / SWIRM domain-containing protein; similar to amine oxidase family protein / SWIRM domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G62830.1); similar to FLD (FLOWERING LOCUS D), amine oxidase [Arabidopsis thaliana] (TAIR:AT3G10390.1); similar to putative polyamine oxidase isoform-2 [Oryza sativa (japonica cultivar-group)] (GB:BAD13198.1); similar to B0103C08-B0602B01.13 [Oryza sativa (indica cultivar-group)] (GB:CAH68056.1); similar to Os08g0143400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060976.1); contains InterPro domain NAD-binding site; (InterPro:IPR000205); contains InterPro domain Amine oxidase; (InterPro:IPR002937); contains InterPro domain SWIRM; (InterPro:IPR007526)\\
## Solyc07g066530 & AT1G56090 & tetratricopeptide repeat (TPR)-containing protein; similar to ROF1 (ROTAMASE FKBP 1), FK506 binding / calmodulin binding / peptidyl-prolyl cis-trans isomerase [Arabidopsis thaliana] (TAIR:AT3G25230.1); similar to H0525G02.8 [Oryza sativa (indica cultivar-group)] (GB:CAJ86311.1); similar to Os04g0616100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053875.1); contains InterPro domain Tetratricopeptide region; (InterPro:IPR013026); contains InterPro domain Tetratricopeptide TPR_1; (InterPro:IPR001440); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc08g005510 & NA & NA\\
## Solyc08g005530 & NA & NA\\
## \addlinespace
## Solyc08g005930 & NA & NA\\
## Solyc08g008580 & AT1G64660 & Encodes a functional methionine gamma-lyase, a cytosolic enzyme catalyzes the degradation of methionine into methanethiol, alpha-ketobutyrate and ammonia. The catabolism of excess methionine is important to methionine homeostasis.\\
## Solyc08g016280 & NA & NA\\
## Solyc08g044310 & NA & NA\\
## Solyc08g045620 & NA & NA\\
## \addlinespace
## Solyc08g061330 & NA & NA\\
## Solyc08g062110 & NA & NA\\
## Solyc08g062420 & NA & NA\\
## Solyc08g062960 & AT2G26150 & member of Heat Stress Transcription Factor (Hsf) family\\
## Solyc08g066270 & NA & NA\\
## \addlinespace
## Solyc08g066380 & NA & NA\\
## Solyc08g066770 & NA & NA\\
## Solyc08g066960 & AT1G15460 & anion exchange family protein; Identical to Boron transporter-like protein 2 [Arabidopsis Thaliana] (GB:Q9XI23); similar to anion exchanger [Arabidopsis thaliana] (TAIR:AT4G32510.1); similar to anion exchange family protein [Arabidopsis thaliana] (TAIR:AT1G74810.1); similar to anion exchange protein family [Arabidopsis thaliana] (TAIR:AT5G25430.1); similar to HCO3-transporter [Medicago truncatula] (GB:ABE78978.1); similar to boron transporter [Oryza sativa (japonica cultivar-group)] (GB:ABD78950.1); similar to boron transporter [Oryza sativa (japonica cultivar-group)] (GB:ABD78951.1); contains InterPro domain HCO3- transporter, eukaryote; (InterPro:IPR003020); contains InterPro domain HCO3-transporter; (InterPro:IPR011531)\\
## Solyc08g068520 & NA & NA\\
## Solyc08g076400 & NA & NA\\
## \addlinespace
## Solyc08g077560 & AT5G47070 & protein kinase, putative; similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT4G17660.1); similar to protein kinase, putative [Brassica oleracea] (GB:ABD65030.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc08g077630 & NA & NA\\
## Solyc08g077740 & NA & NA\\
## Solyc08g078560 & NA & NA\\
## Solyc08g079640 & NA & NA\\
## \addlinespace
## Solyc08g079810 & AT1G73970 & similar to Os02g0123400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045734.1); similar to hypothetical protein MtrDRAFT_AC139344g16v1 [Medicago truncatula] (GB:ABE80081.1); contains domain ARM repeat (SSF48371)\\
## Solyc08g080080 & AT4G22910 & signal transducer; similar to WD-40 repeat family protein [Arabidopsis thaliana] (TAIR:AT4G11920.1); similar to cell cycle switch protein CCS52a [Lupinus luteus] (GB:AAQ54906.1); similar to cell cycle switch protein CCS52A [Lotus corniculatus var. japonicus] (GB:AAY58271.1); similar to cell cycle switch protein [Medicago sativa subsp. x varia] (GB:AAD22612.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain Cdc20/Fizzy; (InterPro:IPR000002); contains InterPro domain Nitrous oxide reductase, N-terminal; (InterPro:IPR011045)\\
## Solyc08g080180 & NA & NA\\
## Solyc08g080320 & NA & NA\\
## Solyc08g080860 & NA & NA\\
## \addlinespace
## Solyc08g081090 & NA & NA\\
## Solyc08g081540 & AT4G11280 & encodes a a member of the 1-aminocyclopropane-1-carboxylate (ACC) synthase (S-adenosyl-L-methionine methylthioadenosine-lyase, EC 4.4.1.14) gene family\\
## Solyc09g005140 & NA & NA\\
## Solyc09g005270 & NA & NA\\
## Solyc09g005290 & NA & NA\\
## \addlinespace
## Solyc09g005490 & NA & NA\\
## Solyc09g007100 & AT2G27090 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G39790.1); similar to Protein of unknown function DUF630 [Medicago truncatula] (GB:ABE82615.1); contains InterPro domain Protein of unknown function DUF632; (InterPro:IPR006867); contains InterPro domain Protein of unknown function DUF630; (InterPro:IPR006868)\\
## Solyc09g010220 & AT2G24280 & serine carboxypeptidase S28 family protein; similar to serine carboxypeptidase S28 family protein [Arabidopsis thaliana] (TAIR:AT5G65760.1); similar to Os01g0767100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044360.1); similar to Os06g0647400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058206.1); similar to PREDICTED: similar to an (GB:XP_214993.2); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Peptidase S28; (InterPro:IPR008758)\\
## Solyc09g010570 & NA & NA\\
## Solyc09g011630 & AT3G09270 & Encodes glutathione transferase belonging to the tau class of GSTs. Naming convention according to Wagner et al. (2002).\\
## \addlinespace
## Solyc09g015370 & NA & NA\\
## Solyc09g025280 & NA & NA\\
## Solyc09g042680 & NA & NA\\
## Solyc09g059350 & NA & NA\\
## Solyc09g061300 & NA & NA\\
## \addlinespace
## Solyc09g061640 & NA & NA\\
## Solyc09g061880 & NA & NA\\
## Solyc09g063110 & NA & NA\\
## Solyc09g065740 & AT2G38290 & encodes a high-affinity ammonium transporter, which is expressed in shoot and root. Expression in root and shoot is under nitrogen and carbon dioxide regulation, respectively.\\
## Solyc09g065770 & NA & NA\\
## \addlinespace
## Solyc09g066020 & NA & NA\\
## Solyc09g074720 & AT4G02560 & Encodes a nuclear localized protein with similarity to transcriptional regulators. Recessive mutants are late flowering. Expression of LFY is reduced in LD mutants.\\
## Solyc09g075700 & NA & NA\\
## Solyc09g082270 & AT3G22600 & protease inhibitor/seed storage/lipid transfer protein (LTP) family protein; similar to protease inhibitor/seed storage/lipid transfer protein (LTP) family protein [Arabidopsis thaliana] (TAIR:AT4G14815.1); similar to Plant lipid transfer protein/Par allergen [Medicago truncatula] (GB:ABE87133.1); contains InterPro domain Plant lipid transfer protein/Par allergen; (InterPro:IPR000528); contains InterPro domain Plant lipid transfer/seed storage/trypsin-alpha amylase inhibitor; (InterPro:IPR003612)\\
## Solyc09g089890 & AT5G43420 & zinc finger (C3HC4-type RING finger) family protein; Identical to RING-H2 finger protein ATL5K (RING-H2 finger protein ATL16) (ATL5K) [Arabidopsis Thaliana] (GB:Q9LSW9); similar to zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] (TAIR:AT1G04360.1); similar to Zinc finger, RING-type [Medicago truncatula] (GB:ABE96713.1); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## \addlinespace
## Solyc09g098050 & NA & NA\\
## Solyc10g005100 & NA & NA\\
## Solyc10g005550 & AT1G16490 & Member of the R2R3 factor gene family.\\
## Solyc10g005980 & NA & NA\\
## Solyc10g006610 & AT5G54510 & Encodes an IAA-amido synthase that conjugates Ala, Asp, Phe, and Trp to auxin. Lines overexpressing this gene accumulate IAA-ASP and are hypersensitive to several auxins. Identified as a dominant mutation that displays shorter hypocotyls in light grown plants when compared to wild type siblings. Protein is similar to auxin inducible gene from pea (GH3).\\
## \addlinespace
## Solyc10g007680 & AT5G48330 & regulator of chromosome condensation (RCC1) family protein; similar to UVR8 (UVB-RESISTANCE 8) [Arabidopsis thaliana] (TAIR:AT5G63860.1); similar to Os02g0197500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046199.1); similar to BNR repeat domain protein [Stigmatella aurantiaca DW4/3-1] (GB:ZP_01462040.1); contains InterPro domain Regulator of chromosome condensation, RCC1; (InterPro:IPR000408); contains InterPro domain Regulator of chromosome condensation/beta-lactamase-inhibitor protein II; (InterPro:IPR009091)\\
## Solyc10g008780 & NA & NA\\
## Solyc10g009620 & AT2G46370 & An auxin-induced gene encoding a cytoplasmic localized phytochrome A signaling component protein similar to the GH3 family of proteins Loss of function mutants are defective in a variety of responses to jasmonic acid.\\
## Solyc10g011960 & NA & NA\\
## Solyc10g012050 & NA & NA\\
## \addlinespace
## Solyc10g012480 & NA & NA\\
## Solyc10g017920 & ATCG00190 & Chloroplast DNA-dependent RNA polymerase B subunit. The transcription of this gene is regulated by a nuclear encoded RNA polymerase. This gene has been transferred to mitochondrial genome during crucifer evolution.\\
## Solyc10g024290 & NA & NA\\
## Solyc10g038010 & NA & NA\\
## Solyc10g038110 & AT5G05010 & clathrin adaptor complexes medium subunit-related; similar to delta-COP [Zea mays] (GB:AAF67098.1); similar to Os05g0310800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055159.1); similar to Os05g0311000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055160.1); contains InterPro domain Clathrin adaptor complex, medium chain; (InterPro:IPR001392); contains InterPro domain Longin-like; (InterPro:IPR011012); contains InterPro domain Mu2 adaptin subunit (AP50) of AP2; (InterPro:IPR008968)\\
## \addlinespace
## Solyc10g039320 & NA & NA\\
## Solyc10g044850 & NA & NA\\
## Solyc10g045100 & AT3G05170 & phosphoglycerate/bisphosphoglycerate mutase family protein; similar to phosphoglycerate/bisphosphoglycerate mutase family protein [Arabidopsis thaliana] (TAIR:AT1G08940.1); similar to Os05g0141700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054606.1); similar to Os06g0109000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056573.1); similar to unknown [Streptomyces murayamaensis] (GB:AAO65326.1); contains InterPro domain Phosphoglycerate/bisphosphoglycerate mutase; (InterPro:IPR001345); contains InterPro domain Phosphoglycerate mutase; (InterPro:IPR013078)\\
## Solyc10g045280 & NA & NA\\
## Solyc10g047840 & NA & NA\\
## \addlinespace
## Solyc10g049530 & NA & NA\\
## Solyc10g050010 & NA & NA\\
## Solyc10g050260 & NA & NA\\
## Solyc10g051200 & AT1G49380 & cytochrome c biogenesis protein family; similar to CCS1 [Chlamydomonas reinhardtii] (GB:AAB95195.1); similar to Os03g0769600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051397.1); contains InterPro domain ResB-like; (InterPro:IPR007816)\\
## Solyc10g052430 & NA & NA\\
## \addlinespace
## Solyc10g054470 & NA & NA\\
## Solyc10g055510 & NA & NA\\
## Solyc10g055710 & NA & NA\\
## Solyc10g074920 & AT5G01930 & (1-4)-beta-mannan endohydrolase, putative; similar to (1-4)-beta-mannan endohydrolase, putative [Arabidopsis thaliana] (TAIR:AT5G66460.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAV44080.1); contains InterPro domain Glycoside hydrolase, family 5; (InterPro:IPR001547)\\
## Solyc10g076900 & AT2G38910 & member of Calcium Dependent Protein Kinase\\
## \addlinespace
## Solyc10g077140 & NA & NA\\
## Solyc10g078350 & NA & NA\\
## Solyc10g079930 & NA & NA\\
## Solyc10g080730 & NA & NA\\
## Solyc10g080800 & NA & NA\\
## \addlinespace
## Solyc10g085190 & AT3G11180 & oxidoreductase, 2OG-Fe(II) oxygenase family protein; similar to oxidoreductase, 2OG-Fe(II) oxygenase family protein [Arabidopsis thaliana] (TAIR:AT5G05600.1); similar to 2OG-Fe(II) oxygenase [Medicago truncatula] (GB:ABE94015.1); contains InterPro domain Isopenicillin N synthase; (InterPro:IPR002283); contains InterPro domain 2OG-Fe(II) oxygenase; (InterPro:IPR005123)\\
## Solyc10g085380 & AT3G51680 & short-chain dehydrogenase/reductase (SDR) family protein; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT3G26770.1); similar to Os03g0299200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049848.1); similar to short-chain alcohol dehydrogenase [Tripsacum dactyloides] (GB:AAB57737.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc11g005180 & NA & NA\\
## Solyc11g005270 & AT5G13810 & glutaredoxin family protein; similar to glutaredoxin family protein [Arabidopsis thaliana] (TAIR:AT3G57070.1); similar to Thioredoxin fold [Medicago truncatula] (GB:ABE87618.1); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Glutaredoxin; (InterPro:IPR002109); contains InterPro domain Thioredoxin fold; (InterPro:IPR012335)\\
## Solyc11g006400 & AT4G32605 & transcription factor; similar to mitochondrial glycoprotein family protein / MAM33 family protein [Arabidopsis thaliana] (TAIR:AT3G55605.1); similar to Os06g0326500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057529.1); similar to Os01g0771100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044382.1); similar to hypothetical protein SPBC776.07 [Schizosaccharomyces pombe 972h-] (GB:NP_596322.1); contains InterPro domain Mitochondrial glycoprotein; (InterPro:IPR003428); contains InterPro domain Helix-turn-helix, Fis-type; (InterPro:IPR002197)\\
## \addlinespace
## Solyc11g006940 & AT5G37570 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G29230.1); similar to H0622F05.4 [Oryza sativa (indica cultivar-group)] (GB:CAH66421.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc11g007460 & NA & NA\\
## Solyc11g010330 & NA & NA\\
## Solyc11g010720 & AT5G65520 & binding; similar to Os02g0204000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046241.1); contains InterPro domain Tetratricopeptide region; (InterPro:IPR013026); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc11g010910 & AT4G29860 & Encodes a WD repeat protein with seven WD repeat motifs, predicted to function in protein-protein interaction. Mutations caused defects in both embryo and seedling development.\\
## \addlinespace
## Solyc11g011310 & AT2G22620 & lyase; similar to lyase [Arabidopsis thaliana] (TAIR:AT4G38030.1); similar to lyase [Arabidopsis thaliana] (TAIR:AT4G37950.1); similar to lyase [Arabidopsis thaliana] (TAIR:AT1G09910.1); similar to Os08g0554100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062464.1); similar to putative MYST1 [Oryza sativa (japonica cultivar-group)] (GB:BAD10227.1); similar to LG27/30-like gene, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA96404.1); contains InterPro domain Rhamnogalacturonate lyase; (InterPro:IPR010325)\\
## Solyc11g013850 & AT1G71865 & similar to OSJNBb0008G24.10 [Oryza sativa (japonica cultivar-group)] (GB:BAB86540.1)\\
## Solyc11g016930 & NA & NA\\
## Solyc11g020790 & NA & NA\\
## Solyc11g020840 & NA & NA\\
## \addlinespace
## Solyc11g027700 & NA & NA\\
## Solyc11g033320 & NA & NA\\
## Solyc11g038340 & NA & NA\\
## Solyc11g039350 & NA & NA\\
## Solyc11g039370 & NA & NA\\
## \addlinespace
## Solyc11g044510 & NA & NA\\
## Solyc11g045470 & NA & NA\\
## Solyc11g045490 & NA & NA\\
## Solyc11g045620 & NA & NA\\
## Solyc11g050980 & NA & NA\\
## \addlinespace
## Solyc11g063540 & NA & NA\\
## Solyc11g065200 & NA & NA\\
## Solyc11g066090 & AT2G37570 & encodes a protein that can complement the salt-sensitive phenotype of a calcineurin (CaN)-deficient yeast mutant. This gene occurs in a single-copy and is 75% identical to tobacco SLT1 gene.\\
## Solyc11g067150 & AT4G04190 & similar to OSJNBa0073L04.1 [Oryza sativa (japonica cultivar-group)] (GB:CAD40662.1); similar to Os04g0410300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052728.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAD72222.1)\\
## Solyc11g067210 & AT2G27610 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G13650.1); similar to Os05g0455900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055727.1); similar to PPR986-12 [Physcomitrella patens] (GB:BAD67155.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc11g068860 & NA & NA\\
## Solyc11g069620 & NA & NA\\
## Solyc11g070040 & AT1G77360 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G71060.1); similar to IMP dehydrogenase/GMP reductase [Medicago truncatula] (GB:ABE81252.1); similar to Os03g0761300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051352.1); similar to Os01g0505500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043145.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc11g070070 & NA & NA\\
## Solyc11g071420 & NA & NA\\
## \addlinespace
## Solyc11g072380 & AT2G28490 & cupin family protein; similar to cupin family protein [Arabidopsis thaliana] (TAIR:AT2G18540.1); similar to probable major protein body membrane protein MP27 / major protein body protein MP32 precursor - cucurbit (GB:T10443); contains InterPro domain Cupin 1; (InterPro:IPR006045); contains InterPro domain Cupin, RmlC-type; (InterPro:IPR011051); contains InterPro domain Cupin region; (InterPro:IPR007113)\\
## Solyc11g072550 & AT4G15093 & catalytic LigB subunit of aromatic ring-opening dioxygenase family; Identical to 4,5-DOPA dioxygenase extradiol-like protein [Arabidopsis Thaliana] (GB:Q949R4;GB:O23363); similar to Extradiol ring-cleavage dioxygenase, class III enzyme, subunit B [Medicago truncatula] (GB:ABE80304.1); contains InterPro domain Extradiol ring-cleavage dioxygenase, class III enzyme, subunit B; (InterPro:IPR004183)\\
## Solyc12g005660 & NA & NA\\
## Solyc12g006960 & AT5G19600 & Encodes sulfate transporter Sultr3;5.\\
## Solyc12g009700 & AT1G05500 & C2 domain-containing protein; similar to C2 domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G11100.1); similar to putative C2 domain-containing protein [Oryza sativa (japonica cultivar-group)] (GB:BAD30714.1); similar to C2 [Medicago truncatula] (GB:ABE86343.1); similar to C2 [Medicago truncatula] (GB:ABE81789.1); contains InterPro domain C2; (InterPro:IPR000008); contains InterPro domain C2 calcium/lipid-binding region, CaLB; (InterPro:IPR008973)\\
## \addlinespace
## Solyc12g013520 & NA & NA\\
## Solyc12g014470 & AT4G26780 & unknown function\\
## Solyc12g014510 & NA & NA\\
## Solyc12g015940 & NA & NA\\
## Solyc12g017700 & AT1G32490 & Encodes a homolog of the yeast PRP2 protein, one of four related DEAH RNA helicases identified as essential cofactors for RNA splicing.\\
## \addlinespace
## Solyc12g019160 & NA & NA\\
## Solyc12g019720 & NA & NA\\
## Solyc12g027470 & NA & NA\\
## Solyc12g027620 & NA & NA\\
## Solyc12g027790 & NA & NA\\
## \addlinespace
## Solyc12g035400 & NA & NA\\
## Solyc12g035720 & NA & NA\\
## Solyc12g036110 & NA & NA\\
## Solyc12g036320 & NA & NA\\
## Solyc12g036670 & NA & NA\\
## \addlinespace
## Solyc12g039080 & AT2G37050 & kinase; similar to leucine-rich repeat family protein / protein kinase family protein [Arabidopsis thaliana] (TAIR:AT1G67720.1); similar to leucine-rich repeat family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95578.2); similar to leucine-rich repeat family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA91110.1); similar to Os11g0102900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065520.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc12g041970 & NA & NA\\
## Solyc12g042420 & NA & NA\\
## Solyc12g042560 & NA & NA\\
## Solyc12g049550 & AT1G53920 & Contains lipase signature motif and GDSL domain.\\
## \addlinespace
## Solyc12g056430 & NA & NA\\
## Solyc12g056850 & AT1G77930 & DNAJ heat shock N-terminal domain-containing protein; similar to DNAJ heat shock family protein [Arabidopsis thaliana] (TAIR:AT3G17830.1); similar to DNAJ heat shock protein, putative [Arabidopsis thaliana] (TAIR:AT1G80030.2); similar to Heat shock protein DnaJ-like [Thiomicrospira denitrificans ATCC 33889] (GB:YP_393068.1); similar to Os07g0626400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060336.1); contains InterPro domain Heat shock protein DnaJ, N-terminal; (InterPro:IPR001623)\\
## Solyc12g063000 & NA & NA\\
## Solyc12g077490 & NA & NA\\
## Solyc12g087800 & NA & NA\\
## \addlinespace
## Solyc12g087930 & NA & NA\\
## Solyc12g088010 & AT1G58250 & SABRE, putative gene of unknown function, homologous to maize apt1 gene. Required for normal cell expansion in the root cortex. The sabre mutation results in abnormal cell expansion. Encodes a rare message; very low level of expression was detected in roots and shoots.\\
## Solyc12g088450 & AT5G23200 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G08270.1); similar to Os02g0634600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047513.1); similar to hypothetical protein MA4_54B05.28 [Musa acuminata] (GB:ABF70082.1)\\
## Solyc12g088950 & NA & NA\\
## Solyc12g094560 & NA & NA\\
## \addlinespace
## Solyc12g095810 & NA & NA\\
## Solyc12g096330 & AT5G10620 & Identical to UPF0247 protein At5g10620 [Arabidopsis Thaliana] (GB:Q9LXB4); similar to OSJNBa0035M09.16 [Oryza sativa (japonica cultivar-group)] (GB:CAE02132.2); similar to conserved hypothetical protein [Candidatus Kuenenia stuttgartiensis] (GB:CAJ73530.1); similar to Os04g0606900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053804.1); contains InterPro domain Protein of unknown function DUF163; (InterPro:IPR003742)\\
## Solyc12g098760 & NA & NA\\
## Solyc12g099220 & NA & NA\\
## Solyc12g099620 & AT4G32430 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G27610.1); similar to Os07g0670000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060591.1); similar to PPR1106-17 [Physcomitrella patens] (GB:BAD67156.2); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \bottomrule
## \end{tabular}Cluster 9
This one is hard to interpret.
clusterVis(9)## Using gene as id variables
clusterVis_PCA(9)
clusterVis_line(9)## Using gene, curated as id variables
#clusterGO(9)
y <- genesInClust(9, data.val2, annotation) ## [1] 78kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g011880 & AT2G24390 & similar to avirulence-responsive protein-related / avirulence induced gene (AIG) protein-related [Arabidopsis thaliana] (TAIR:AT4G31310.1); similar to Os02g0141000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045856.1); similar to hypothetical protein SNOG_11054 [Phaeosphaeria nodorum SN15] (GB:EAT81553.1); similar to conserved hypothetical protein [Caldicellulosiruptor saccharolyticus DSM 8903] (GB:ZP_00885054.1); contains InterPro domain AIG2-like; (InterPro:IPR009288)\\
## Solyc01g006320 & NA & NA\\
## Solyc01g008400 & NA & NA\\
## Solyc01g008660 & NA & NA\\
## Solyc01g079130 & AT1G02460 & glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein; similar to glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein [Arabidopsis thaliana] (TAIR:AT4G01890.1); similar to Ribosome-binding factor A; Glycoside hydrolase, family 28 [Medicago truncatula] (GB:ABE78820.1); contains InterPro domain Virulence factor, pectin lyase fold; (InterPro:IPR011050); contains InterPro domain Glycoside hydrolase, family 28; (InterPro:IPR000743); contains InterPro domain Pectolytic enzyme, Pectin lyase fold; (InterPro:IPR012334); contains InterPro domain Parallel beta-helix repeat; (InterPro:IPR006626)\\
## \addlinespace
## Solyc01g089990 & NA & NA\\
## Solyc01g097400 & AT3G22910 & calcium-transporting ATPase, plasma membrane-type, putative / Ca(2+)-ATPase, putative (ACA13); Identical to Putative calcium-transporting ATPase 13, plasma membrane-type (EC 3.6.3.8) (Ca(2+)-ATPase isoform 13) (ACA13) [Arabidopsis Thaliana] (GB:Q9LIK7); similar to ACA10 (autoinhibited Ca2+ -ATPase 10), calcium-transporting ATPase/ calmodulin binding [Arabidopsis thaliana] (TAIR:AT4G29900.1); similar to calcium-transporting ATPase, plasma membrane-type, putative / Ca(2+)-ATPase, putative (ACA12) [Arabidopsis thaliana] (TAIR:AT3G63380.1); similar to ACA8 (AUTOINHIBITED CA2+ -ATPASE, ISOFORM 8), calmodulin binding [Arabidopsis thaliana] (TAIR:AT5G57110.2); similar to type IIB calcium ATPase [Medicago truncatula] (GB:AAL17950.1); similar to Putative calcium-transporting ATPase [Oryza sativa] (GB:AAM08790.1); similar to putative calcium-transporting ATPase 8, plasma membrane-type [Oryza sativa (japonica cultivar-group)] (GB:BAD09972.1); contains InterPro domain E1-E2 ATPase-associated region; (InterPro:IPR008250); contains InterPro domain ATPase, P-type, K/Mg/Cd/Cu/Zn/Na/Ca/Na/H-transporter; (InterPro:IPR001757); contains InterPro domain ATPase, P-type cation-transporter, C-terminal; (InterPro:IPR006068); contains InterPro domain Haloacid dehalogenase-like hydrolase; (InterPro:IPR005834); contains InterPro domain Calcium-translocating P-type ATPase, PMCA-type; (InterPro:IPR006408); contains InterPro domain ATPase, P-type cation-transporter, N-terminal; (InterPro:IPR004014); contains InterPro domain H+ transporting ATPase, proton pump; (InterPro:IPR000695)\\
## Solyc01g104150 & NA & NA\\
## Solyc01g104430 & NA & NA\\
## Solyc02g061620 & AT4G39280 & phenylalanyl-tRNA synthetase, putative / phenylalanine--tRNA ligase, putative; Identical to Probable phenylalanyl-tRNA synthetase alpha chain (EC 6.1.1.20) (Phenylalanine--tRNA ligase alpha chain) (PheRS) [Arabidopsis Thaliana] (GB:Q9T034;GB:Q8LPR1); similar to phenylalanyl-tRNA synthetase class IIc family protein [Arabidopsis thaliana] (TAIR:AT3G58140.1); similar to Phenylalanyl-tRNA synthetase, class IIc; Aminoacyl-transfer RNA synthetase, class II [Medicago truncatula] (GB:ABE82725.1); similar to Os10g0400800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064545.1); similar to phenylalanyl-tRNA synthetase alpha chain, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABB47545.1); contains InterPro domain Phenylalanyl-tRNA synthetase, alpha subunit; (InterPro:IPR004529); contains InterPro domain Phenylalanyl-tRNA synthetase, class IIc; (InterPro:IPR002319); contains InterPro domain Aminoacyl-transfer RNA synthetase, class II; (InterPro:IPR006195)\\
## \addlinespace
## Solyc02g079990 & NA & NA\\
## Solyc02g080170 & NA & NA\\
## Solyc02g088950 & NA & NA\\
## Solyc03g031440 & AT4G27270 & quinone reductase family protein; similar to FQR1 (FLAVODOXIN-LIKE QUINONE REDUCTASE 1) [Arabidopsis thaliana] (TAIR:AT5G54500.1); similar to putative quinone oxidoreductase [Cicer arietinum] (GB:CAD31838.1); contains InterPro domain Flavodoxin/nitric oxide synthase; (InterPro:IPR008254)\\
## Solyc03g044220 & AT5G67250 & Encodes an SKP1 interacting partner (SKIP2).\\
## \addlinespace
## Solyc03g095460 & NA & NA\\
## Solyc03g095770 & NA & NA\\
## Solyc03g098340 & AT1G73240 & similar to hypothetical protein SDM1_56t00017 [Solanum demissum] (GB:AAU90340.1)\\
## Solyc03g098440 & AT3G17670 & binding; similar to stress-inducible protein, putative [Arabidopsis thaliana] (TAIR:AT1G62740.1); similar to Putative TPR domain containing protein, identical [Solanum demissum] (GB:AAU90344.1); contains InterPro domain Tetratricopeptide region; (InterPro:IPR013026); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Tetratricopeptide TPR_1; (InterPro:IPR001440); contains InterPro domain Tetratricopeptide TPR_2; (InterPro:IPR013105); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc03g112970 & NA & NA\\
## \addlinespace
## Solyc03g113730 & AT3G48140 & senescence-associated protein, putative; similar to germination protein-related [Arabidopsis thaliana] (TAIR:AT3G29970.1); similar to HvB12D [Hordeum vulgare subsp. vulgare] (GB:CAA54065.1); contains InterPro domain B12D; (InterPro:IPR010530)\\
## Solyc03g115040 & AT1G03220 & extracellular dermal glycoprotein, putative / EDGP, putative; similar to extracellular dermal glycoprotein, putative / EDGP, putative [Arabidopsis thaliana] (TAIR:AT1G03230.1); similar to putative xyloglucanase inhibitor [Solanum tuberosum] (GB:AAP84703.1); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007)\\
## Solyc03g118380 & AT4G14660 & RNA polymerase Rpb7 N-terminal domain-containing protein; similar to RNA polymerase Rpb7 N-terminal domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G22900.1); similar to putative receptor kinase [Oryza sativa (japonica cultivar-group)] (GB:AAS98454.2); similar to Os05g0157100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054703.1); contains InterPro domain Nucleic acid-binding, OB-fold, subgroup; (InterPro:IPR012340); contains InterPro domain Nucleic acid-binding, OB-fold; (InterPro:IPR008994); contains InterPro domain RNA polymerase Rpb7, N-terminal; (InterPro:IPR005576)\\
## Solyc04g005380 & NA & NA\\
## Solyc04g007360 & NA & NA\\
## \addlinespace
## Solyc04g010140 & NA & NA\\
## Solyc04g010200 & AT5G13580 & ABC transporter family protein; Identical to White-brown complex homolog protein 6 (WBC6) [Arabidopsis Thaliana] (GB:Q9FNB5); similar to ABC transporter family protein [Arabidopsis thaliana] (TAIR:AT2G39350.1); similar to ABC transporter family protein [Arabidopsis thaliana] (TAIR:AT3G55090.1); similar to ABC transporter family protein [Arabidopsis thaliana] (TAIR:AT3G53510.1); similar to stigma/style ABC transporter [Nicotiana tabacum] (GB:AAR06252.1); similar to putative ATP-binding-cassette transporter protein [Oryza sativa (japonica cultivar-group)] (GB:AAN64479.1); similar to ABC transporter-like protein [Brassica rapa] (GB:ABB97036.1); contains InterPro domain ABC-2 type transporter; (InterPro:IPR013525); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain ABC transporter related; (InterPro:IPR003439)\\
## Solyc04g056410 & AT3G19210 & Encodes RAD54, a member of the SWI2/SNF2 family of DNA-stimulated ATPases. Functions in DNA repair via homologous recombination.\\
## Solyc04g074120 & NA & NA\\
## Solyc04g076010 & NA & NA\\
## \addlinespace
## Solyc04g079800 & NA & NA\\
## Solyc05g009630 & NA & NA\\
## Solyc05g015130 & NA & NA\\
## Solyc05g047560 & AT5G59070 & glycosyl transferase family 1 protein; similar to glycosyl transferase family 1 protein [Arabidopsis thaliana] (TAIR:AT4G19460.1); similar to glycosyltransferase family-like protein [Oryza sativa (japonica cultivar-group)] (GB:BAD10154.1); similar to Os01g0653200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043742.1); contains InterPro domain Glycosyl transferase, group 1; (InterPro:IPR001296)\\
## Solyc05g056560 & AT1G66080 & similar to Hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAO06975.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABF94856.1); contains InterPro domain Protein of unknown function DUF775; (InterPro:IPR008493)\\
## \addlinespace
## Solyc06g034150 & AT5G04620 & The cDNA encoding 7-keto-8-aminopelargonic acid (KAPA) synthase, the first committed enzyme of the biotin synthesis pathway has been cloned and its molecular function confirmed (functional complementation of an E. coli mutant). The subcellular localization of the enzyme (cytosol) proves that the biotin biosynthesis in plants takes place in different compartments which differs from the biosynthetic route found in microorganisms.\\
## Solyc06g043160 & NA & NA\\
## Solyc06g063190 & NA & NA\\
## Solyc06g065740 & AT1G15880 & Golgi SNARE 11 protein (GOS11)\\
## Solyc06g071440 & NA & NA\\
## \addlinespace
## Solyc06g075330 & NA & NA\\
## Solyc07g039380 & NA & NA\\
## Solyc07g052470 & AT3G03800 & member of SYP13 Gene Family\\
## Solyc07g061960 & AT1G53580 & ETHE1/GLX2-3 (GLYOXALASE 2-3); hydroxyacylglutathione hydrolase; Identical to Putative hydroxyacylglutathione hydrolase 3, mitochondrial precursor (EC 3.1.2.6) (Glyoxalase II) (Glx II) (GLY3) [Arabidopsis Thaliana] (GB:Q9C8L4;GB:Q93VR2;GB:Q96332;GB:Q9LPH3); similar to GLX2-2 (GLYOXALASE 2-2), hydroxyacylglutathione hydrolase [Arabidopsis thaliana] (TAIR:AT3G10850.1); similar to hypothetical protein LOC405865 [Danio rerio] (GB:NP_998094.1); similar to Os01g0667200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043807.1); contains InterPro domain Beta-lactamase-like; (InterPro:IPR001279)\\
## Solyc07g064790 & NA & NA\\
## \addlinespace
## Solyc07g066550 & AT1G56130 & leucine-rich repeat family protein / protein kinase family protein; similar to leucine-rich repeat family protein / protein kinase family protein [Arabidopsis thaliana] (TAIR:AT1G56145.1); similar to leucine-rich repeat family protein / protein kinase family protein [Arabidopsis thaliana] (TAIR:AT1G56120.1); similar to leucine-rich repeat family protein / protein kinase family protein [Arabidopsis thaliana] (TAIR:AT1G56140.1); similar to putative Receptor-like serine/threonine kinase(RFK1) [Oryza sativa (japonica cultivar-group)] (GB:BAD03117.1); similar to SHR5-receptor-like kinase [Saccharum hybrid cultivar] (GB:AAY67902.1); similar to OSJNBa0093O08.1 [Oryza sativa (japonica cultivar-group)] (GB:CAD41882.2); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc08g006210 & NA & NA\\
## Solyc08g007210 & NA & NA\\
## Solyc08g063070 & AT5G11910 & esterase/lipase/thioesterase family protein; similar to esterase/lipase/thioesterase family protein [Arabidopsis thaliana] (TAIR:AT3G47590.1); similar to esterase/lipase/thioesterase family protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD44964.1); similar to Os01g0579900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043402.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379)\\
## Solyc08g078670 & AT4G16563 & aspartyl protease family protein; similar to aspartyl protease family protein [Arabidopsis thaliana] (TAIR:AT5G45120.1); similar to Peptidase aspartic, active site [Medicago truncatula] (GB:ABE80893.1); contains InterPro domain Peptidase A1, pepsin; (InterPro:IPR001461); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007)\\
## \addlinespace
## Solyc08g079150 & AT4G22620 & auxin-responsive family protein; similar to auxin-responsive family protein [Arabidopsis thaliana] (TAIR:AT4G12410.1); similar to Auxin responsive SAUR protein [Medicago truncatula] (GB:ABE93517.1); similar to Os04g0537100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053425.1); similar to Os02g0643800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047561.1); contains InterPro domain Auxin responsive SAUR protein; (InterPro:IPR003676)\\
## Solyc09g018440 & NA & NA\\
## Solyc09g042780 & NA & NA\\
## Solyc09g072640 & NA & NA\\
## Solyc09g074850 & AT2G47730 & Encodes glutathione transferase belonging to the phi class of GSTs. Naming convention according to Wagner et al. (2002).\\
## \addlinespace
## Solyc09g075270 & AT4G02360 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G02813.1); similar to Os05g0362300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055314.1); similar to Protein of unknown function, DUF538 [Oryza sativa (japonica cultivar-group)] (GB:AAX95409.1); similar to Os05g0362500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055315.1); contains InterPro domain Protein of unknown function DUF538; (InterPro:IPR007493)\\
## Solyc09g075540 & AT4G16120 & putative membrane-anchored cell wall protein\\
## Solyc09g082620 & NA & NA\\
## Solyc10g008450 & NA & NA\\
## Solyc10g017880 & NA & NA\\
## \addlinespace
## Solyc10g047900 & NA & NA\\
## Solyc10g049630 & AT4G33920 & protein phosphatase 2C family protein / PP2C family protein; similar to protein phosphatase 2C family protein / PP2C family protein [Arabidopsis thaliana] (TAIR:AT5G66080.1); similar to protein phosphatase 2C, putative / PP2C, putative [Arabidopsis thaliana] (TAIR:AT3G51370.1); similar to Os12g0580900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067133.1); similar to BTH-induced protein phosphatase 2C 2 K2 form [Oryza sativa (indica cultivar-group)] (GB:AAW29521.1); similar to Os03g0761100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051350.1); contains InterPro domain Protein phosphatase 2C-like; (InterPro:IPR001932)\\
## Solyc10g076300 & AT2G38480 & integral membrane protein, putative; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G36330.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAO60016.1); similar to Os03g0817100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051699.1); similar to Os05g0344400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055254.1); contains InterPro domain Protein of unknown function DUF588; (InterPro:IPR006702)\\
## Solyc10g080110 & AT4G35910 & similar to Os12g0588900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067163.1); similar to hypothetical protein LOC614194 [Bos taurus] (GB:NP_001030521.1); contains domain no description (G3D.3.40.50.610); contains domain FAMILY NOT NAMED (PTHR20882); contains domain SUBFAMILY NOT NAMED (PTHR20882:SF1); contains domain Adenine nucleotide alpha hydrolases-like (SSF52402)\\
## Solyc10g083180 & AT1G52340 & Encodes a cytosolic short-chain dehydrogenase/reductase involved in the conversion of xanthoxin to ABA-aldehyde during ABA biosynthesis. Mutants are insensitive to sucrose and glucose.\\
## \addlinespace
## Solyc10g083330 & NA & NA\\
## Solyc10g084510 & NA & NA\\
## Solyc11g020180 & AT5G05680 & nuclear pore complex protein-related; similar to B0402A04.2 [Oryza sativa (indica cultivar-group)] (GB:CAH67135.1); similar to Os04g0608400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053813.1); similar to OSJNBa0060N03.11 [Oryza sativa (japonica cultivar-group)] (GB:CAE03646.2); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc11g062060 & NA & NA\\
## Solyc11g062310 & AT2G26780 & binding; similar to HEAT repeat family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95739.2); similar to unnamed protein product [Ostreococcus tauri] (GB:CAL52718.1); similar to HEAT repeat family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA91356.2); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain HEAT; (InterPro:IPR000357)\\
## \addlinespace
## Solyc11g069390 & NA & NA\\
## Solyc12g008420 & NA & NA\\
## Solyc12g014480 & NA & NA\\
## Solyc12g044440 & AT1G53460 & similar to zinc finger (Ran-binding) family protein [Arabidopsis thaliana] (TAIR:AT1G55040.1); similar to Zn-finger in Ran binding protein and others, putative [Oryza sativa (japonica cultivar-group)] (GB:AAX95671.1); similar to Os03g0712200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051062.1); similar to Os01g0203300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042331.1)\\
## Solyc12g049310 & AT1G54210 & ATG12a (AUTOPHAGY 12); protein binding; Identical to Autophagy-related protein 12a (AtAPG12a) (ATG12A) [Arabidopsis Thaliana] (GB:Q8S924); similar to APG12/APG12B (AUTOPHAGY 12) [Arabidopsis thaliana] (TAIR:AT3G13970.1); similar to Chain A, The Crystal Structure Of Plant Atg12 (GB:1WZ3); contains InterPro domain Autophagy protein Apg12; (InterPro:IPR007242)\\
## \addlinespace
## Solyc12g098190 & NA & NA\\
## Solyc12g098860 & AT1G48310 & SNF2 domain-containing protein / helicase domain-containing protein; similar to SNF2 domain-containing protein / helicase domain-containing protein / HNH endonuclease domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G07810.1); similar to Os07g0636200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060393.1); similar to Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) (ISS) [Ostreococcus tauri] (GB:CAL56862.1); contains InterPro domain DEAD/DEAH box helicase, N-terminal; (InterPro:IPR011545); contains InterPro domain SNF2-related; (InterPro:IPR000330); contains InterPro domain Helicase, C-terminal; (InterPro:IPR001650)\\
## Solyc12g100070 & AT3G13440 & similar to Methyltransferase small domain, putative [Medicago truncatula] (GB:ABD33115.1); contains InterPro domain Methyltransferase type 12; (InterPro:IPR013217); contains InterPro domain SAM (and some other nucleotide) binding motif; (InterPro:IPR000051)\\
## \bottomrule
## \end{tabular}Cluster 10
clusterVis(10)## Using gene as id variables
clusterVis_PCA(10)
clusterVis_line(10)## Using gene, curated as id variables
#clusterGO(10)
y <- genesInClust(10, data.val2, annotation) ## [1] 106kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g005430 & NA & NA\\
## Solyc01g066460 & AT4G02340 & epoxide hydrolase, putative; similar to epoxide hydrolase, putative [Arabidopsis thaliana] (TAIR:AT3G05600.1); similar to soluble epoxide hydrolase [Citrus jambhiri] (GB:BAD13534.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073); contains InterPro domain Epoxide hydrolase; (InterPro:IPR000639); contains InterPro domain Alpha/beta hydrolase; (InterPro:IPR003089)\\
## Solyc01g066770 & AT5G49060 & DNAJ heat shock N-terminal domain-containing protein; Identical to Chaperone protein dnaJ 49 (AtJ49) (AtDjC49) (ATJ49) [Arabidopsis Thaliana] (GB:Q9FH28;GB:Q67XE5); similar to DNAJ heat shock N-terminal domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G57340.2); similar to Os05g0364500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055322.1); similar to dnaJ-like protein [Oryza sativa (japonica cultivar-group)] (GB:BAB89081.1); similar to Os01g0556400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043324.1); contains InterPro domain Heat shock protein DnaJ; (InterPro:IPR003095); contains InterPro domain Heat shock protein DnaJ, N-terminal; (InterPro:IPR001623)\\
## Solyc01g079400 & AT3G62390 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G12060.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABF95542.1); contains InterPro domain Protein of unknown function DUF231, plant; (InterPro:IPR004253)\\
## Solyc01g080460 & AT4G15530 & PPDK (PYRUVATE ORTHOPHOSPHATE DIKINASE); kinase; similar to Pyruvate, phosphate dikinase, chloroplast precursor (Pyruvate, orthophosphate dikinase) (GB:Q42910); similar to Pyruvate, phosphate dikinase, chloroplast precursor (Pyruvate, orthophosphate dikinase) (GB:Q42736); similar to Pyruvate, phosphate dikinase, chloroplast precursor (Pyruvate, orthophosphate dikinase) (Cold-sensitive pyruvate, orthophosphate dikinase) (GB:Q39734); contains InterPro domain PEP-utilizing enzyme; (InterPro:IPR000121); contains InterPro domain Pyruvate phosphate dikinase, PEP/pyruvate-binding; (InterPro:IPR002192); contains InterPro domain Pyruvate, phosphate dikinase; (InterPro:IPR010121); contains InterPro domain PEP-utilising enzyme, mobile region; (InterPro:IPR008279)\\
## \addlinespace
## Solyc01g081000 & NA & NA\\
## Solyc01g081540 & AT2G31900 & Encodes an novel myosin isoform.\\
## Solyc01g094240 & AT3G61220 & short-chain dehydrogenase/reductase (SDR) family protein; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT2G24190.1); similar to Short-chain dehydrogenase/reductase SDR [Medicago truncatula] (GB:ABD28440.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc01g096220 & AT1G01200 & AtRABA3 (Arabidopsis Rab GTPase homolog A3); GTP binding; similar to SMG1 (SMALL MOLECULAR WEIGHT G-PROTEIN 1), GTP binding [Arabidopsis thaliana] (TAIR:AT5G47960.1); similar to RAB11B [Lotus japonicus] (GB:CAA98178.1); contains InterPro domain Small GTP-binding protein domain; (InterPro:IPR005225); contains InterPro domain Ras small GTPase, Rab type; (InterPro:IPR003579); contains InterPro domain Ras GTPase; (InterPro:IPR001806); contains InterPro domain Ras; (InterPro:IPR013753)\\
## Solyc01g098400 & AT3G21510 & Encodes AHP1, one of the six Arabidopsis thaliana histidine phosphotransfer proteins (AHPs). AHPs function as redundant positive regulators of cytokinin signaling. Members of the AHP gene family include: AT3G21510 (AHP1), AT3G29350 (APH2), AT5G39340 (APH3), AT3G16360 (APH4), AT1G03430 (APH5) and AT1G80100 (APH6).\\
## \addlinespace
## Solyc01g098450 & NA & NA\\
## Solyc01g100450 & AT1G09820 & pentatricopeptide (PPR) repeat-containing protein; similar to EMB2745 (EMBRYO DEFECTIVE 2745), binding [Arabidopsis thaliana] (TAIR:AT5G39710.1); similar to Pentatricopeptide repeat [Medicago truncatula] (GB:ABE84479.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc01g105680 & AT5G64330 & Involved in blue light response signaling pathway; interacts with the blue light photoreceptor NPH1.Null mutations abolish phototrophic responses of etiolated seedlings to low fluence blue light. Protein contains multiple protein-protein interaction domains.\\
## Solyc01g105950 & NA & NA\\
## Solyc01g106910 & NA & NA\\
## \addlinespace
## Solyc01g111040 & AT4G38810 & calcium-binding EF hand family protein; similar to calcium-binding EF hand family protein [Arabidopsis thaliana] (TAIR:AT5G28830.1); similar to 39 kDa EF-Hand containing protein [Solanum tuberosum] (GB:CAA04670.1); contains InterPro domain EF-Hand type; (InterPro:IPR011992)\\
## Solyc01g111070 & AT4G34850 & chalcone and stilbene synthase family protein; similar to chalcone and stilbene synthase family protein [Arabidopsis thaliana] (TAIR:AT1G02050.1); similar to Chalcone synthase [Silene latifolia] (GB:BAE80096.1); contains InterPro domain Chalcone and stilbene synthases, N-terminal; (InterPro:IPR001099); contains InterPro domain Type III polyketide synthase; (InterPro:IPR011141); contains InterPro domain Chalcone and stilbene synthases, C-terminal; (InterPro:IPR012328)\\
## Solyc02g014030 & NA & NA\\
## Solyc02g062550 & AT3G50930 & AAA-type ATPase family protein; similar to AAA-type ATPase family protein [Arabidopsis thaliana] (TAIR:AT3G50940.1); similar to AAA ATPase [Medicago truncatula] (GB:ABE84083.1); contains InterPro domain AAA-protein subdomain; (InterPro:IPR003960); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc02g062800 & NA & NA\\
## \addlinespace
## Solyc02g063190 & NA & NA\\
## Solyc02g067800 & NA & NA\\
## Solyc02g071360 & AT1G17020 & Encodes a novel member of the Fe(II)/ascorbate oxidase gene family; senescence-related gene.\\
## Solyc02g071620 & AT1G29670 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT1G29660.1); similar to GDSL-lipase 1 [Capsicum annuum] (GB:AAZ23955.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc02g079500 & NA & NA\\
## \addlinespace
## Solyc02g079790 & AT1G61667 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G54530.1); similar to Os07g0548800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059929.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAC57724.1); contains InterPro domain Protein of unknown function DUF538; (InterPro:IPR007493)\\
## Solyc02g085190 & NA & NA\\
## Solyc02g085490 & AT5G66740 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G75160.1); similar to BAC19.5 [Lycopersicon esculentum] (GB:AAG01120.1); contains InterPro domain Protein of unknown function DUF620; (InterPro:IPR006873)\\
## Solyc02g085510 & NA & NA\\
## Solyc02g085980 & NA & NA\\
## \addlinespace
## Solyc02g086590 & AT5G40380 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT1G70530.1); similar to Protein kinase domain containing protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA93633.2); similar to Os05g0130100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054549.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Protein of unknown function DUF26; (InterPro:IPR002902); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc02g087850 & NA & NA\\
## Solyc02g088900 & AT3G17430 & phosphate translocator-related; similar to phosphate translocator-related [Arabidopsis thaliana] (TAIR:AT1G48230.1); similar to expressed protein (with alternative splicing) [Oryza sativa (japonica cultivar-group)] (GB:AAS07264.1); contains InterPro domain Protein of unknown function DUF250; (InterPro:IPR004853)\\
## Solyc02g090470 & AT1G49570 & peroxidase, putative; Identical to Peroxidase 10 precursor (EC 1.11.1.7) (Atperox P10) (ATP5a) (PER10) [Arabidopsis Thaliana] (GB:Q9FX85;GB:Q96513); similar to peroxidase, putative [Arabidopsis thaliana] (TAIR:AT5G06730.1); similar to bacterial-induced peroxidase precursor [Gossypium hirsutum] (GB:AAD43561.1); similar to Peroxidase A2 (GB:P80679); contains InterPro domain Haem peroxidase; (InterPro:IPR010255); contains InterPro domain Haem peroxidase, plant/fungal/bacterial; (InterPro:IPR002016); contains InterPro domain Plant peroxidase; (InterPro:IPR000823)\\
## Solyc02g090750 & AT4G37020 & similar to eukaryotic translation initiation factor 4A, putative / eIF-4A, putative / DEAD box RNA helicase, putative [Arabidopsis thaliana] (TAIR:AT3G19760.1); similar to Centrin [Oryza sativa (japonica cultivar-group)] (GB:AAK13107.1); similar to Os10g0388900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064497.1); contains domain no description (G3D.3.40.50.300); contains domain P-loop containing nucleoside triphosphate hydrolases (SSF52540)\\
## \addlinespace
## Solyc02g093250 & AT4G34050 & caffeoyl-CoA 3-O-methyltransferase, putative; Identical to Probable caffeoyl-CoA O-methyltransferase At4g34050 (EC 2.1.1.104) (Trans-caffeoyl-CoA 3-O-methyltransferase) (CCoAMT) (CCoAOMT) [Arabidopsis Thaliana] (GB:O49499;GB:Q8L989); similar to caffeoyl-CoA 3-O-methyltransferase, putative [Arabidopsis thaliana] (TAIR:AT4G26220.1); similar to putative caffeoyl-CoA O-methyltransferase protein [Isatis tinctoria] (GB:AAZ95245.1); contains InterPro domain O-methyltransferase, family 3; (InterPro:IPR002935)\\
## Solyc03g033840 & AT3G50930 & AAA-type ATPase family protein; similar to AAA-type ATPase family protein [Arabidopsis thaliana] (TAIR:AT3G50940.1); similar to AAA ATPase [Medicago truncatula] (GB:ABE84083.1); contains InterPro domain AAA-protein subdomain; (InterPro:IPR003960); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc03g059400 & NA & NA\\
## Solyc03g063140 & AT1G65620 & required for formation of a symmetric flat leaf lamina, encodes a member of a family of proteins characterized by cysteine repeats and a leucine zipper; involved in KNOX gene regulation. Acts together with ASL1 in proximal-distal symmetry determination.\\
## Solyc03g071790 & AT3G49250 & similar to ATP binding [Arabidopsis thaliana] (TAIR:AT5G24280.1); similar to AT3g49250/F2K15_110 [Medicago truncatula] (GB:ABE81692.1)\\
## \addlinespace
## Solyc03g078650 & AT5G05840 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G55720.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAP06886.1); similar to Os03g0267500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049665.1); contains InterPro domain Protein of unknown function DUF620; (InterPro:IPR006873)\\
## Solyc03g079860 & NA & NA\\
## Solyc03g082410 & NA & NA\\
## Solyc03g111550 & AT3G48460 & GDSL-motif lipase/hydrolase family protein; similar to lipase, putative [Arabidopsis thaliana] (TAIR:AT1G28650.1); similar to Os03g0844600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051872.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAT44175.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc03g112060 & AT5G50210 & Quinolinate synthase (QS) activity of At5g50210 has been demonstrated by functional complementation of corresponding E. coli mutants and complementation of embryo-lethal phenotypes of the QS homozygous null allele in Arabidopsis.\\
## \addlinespace
## Solyc03g115730 & NA & NA\\
## Solyc04g007820 & NA & NA\\
## Solyc04g007900 & AT1G14870 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G35525.1); similar to Os02g0579800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047231.1); similar to Uncharacterized Cys-rich domain [Medicago truncatula] (GB:ABE80519.1); similar to Os03g0830500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051787.1); contains InterPro domain Protein of unknown function Cys-rich; (InterPro:IPR006461)\\
## Solyc04g039790 & NA & NA\\
## Solyc04g058110 & NA & NA\\
## \addlinespace
## Solyc04g072920 & AT5G65140 & trehalose-6-phosphate phosphatase, putative; similar to trehalose-6-phosphate phosphatase, putative [Arabidopsis thaliana] (TAIR:AT5G10100.1); similar to 117M18_9 [Brassica rapa] (GB:AAZ66928.1); contains InterPro domain Trehalose-phosphatase; (InterPro:IPR003337); contains InterPro domain HAD-superfamily hydrolase subfamily IIB; (InterPro:IPR006379)\\
## Solyc05g008310 & NA & NA\\
## Solyc05g039940 & NA & NA\\
## Solyc05g041390 & NA & NA\\
## Solyc05g051460 & NA & NA\\
## \addlinespace
## Solyc06g005530 & NA & NA\\
## Solyc06g007460 & NA & NA\\
## Solyc06g008820 & AT3G05030 & member of Sodium proton exchanger family\\
## Solyc06g011350 & AT2G37170 & a member of the plasma membrane intrinsic protein subfamily PIP2. localizes to the plasma membrane and exhibits water transport activity in Xenopus oocyte. expressed specifically in the vascular bundles and protein level increases slightly during leaf dev\\
## Solyc06g016820 & NA & NA\\
## \addlinespace
## Solyc06g035410 & NA & NA\\
## Solyc06g054220 & NA & NA\\
## Solyc06g069190 & NA & NA\\
## Solyc06g071890 & AT5G20090 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G14695.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G22310.1); similar to brain protein 44-like [Zea mays] (GB:AAV28624.1); contains InterPro domain Protein of unknown function UPF0041; (InterPro:IPR005336)\\
## Solyc06g072000 & AT4G02480 & AAA-type ATPase family protein; similar to AAA-type ATPase family protein [Arabidopsis thaliana] (TAIR:AT1G62130.1); similar to AAA-type ATPase family protein [Arabidopsis thaliana] (TAIR:AT1G02890.1); similar to AAA-type ATPase family protein [Arabidopsis thaliana] (TAIR:AT4G24860.1); similar to AAA-type ATPase family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95244.2); similar to Peptidase S1 and S6, chymotrypsin/Hap; Immunoglobulin/major histocompatibility complex; AAA ATPase, central re (GB:ABE85040.1); similar to Peptidase S1 and S6, chymotrypsin/Hap; Immunoglobulin/major histocompatibility complex; AAA ATPase, central re (GB:ABE85038.1); contains InterPro domain AAA-protein subdomain; (InterPro:IPR003960); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain SMAD/FHA; (InterPro:IPR008984); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## \addlinespace
## Solyc06g073240 & AT4G34215 & Encodes a member of the SGNH-hydrolase superfamily of enzymes. The enzymes of the SGNH-hydrolase superfamily facilitate the hydrolysis of ester, thioester and amide bonds in a range of substrates including complex polysaccharides, lysophospholipids, acyl-CoA esters and other compounds.\\
## Solyc06g083880 & AT2G20515 & similar to Os04g0517000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053317.1); similar to OSJNBa0073E02.5 [Oryza sativa (japonica cultivar-group)] (GB:CAE05445.2); similar to OSIGBa0145M07.3 [Oryza sativa (indica cultivar-group)] (GB:CAH67221.1)\\
## Solyc07g007750 & NA & NA\\
## Solyc07g008710 & NA & NA\\
## Solyc07g047960 & NA & NA\\
## \addlinespace
## Solyc07g053150 & NA & NA\\
## Solyc07g062040 & AT1G78530 & protein kinase family protein; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT1G31420.1); similar to Os01g0247500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042578.1); similar to putative brassinosteroid receptor [Oryza sativa (japonica cultivar-group)] (GB:BAB18321.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc07g065920 & NA & NA\\
## Solyc08g005260 & NA & NA\\
## Solyc08g005710 & NA & NA\\
## \addlinespace
## Solyc08g007390 & NA & NA\\
## Solyc08g007540 & AT1G12420 & ACR8 (ACT Domain Repeat 8); similar to ACR7 (ACT Domain Repeat 7) [Arabidopsis thaliana] (TAIR:AT4G22780.1); similar to Os03g0247900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049552.1); similar to ACT domain, putative [Medicago truncatula] (GB:ABE90521.1); similar to Os08g0118100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060867.1); contains InterPro domain Amino acid-binding ACT; (InterPro:IPR002912)\\
## Solyc08g060970 & NA & NA\\
## Solyc08g068760 & NA & NA\\
## Solyc08g076790 & NA & NA\\
## \addlinespace
## Solyc08g078780 & NA & NA\\
## Solyc08g080990 & NA & NA\\
## Solyc08g082630 & AT4G23980 & Encodes auxin response factor 9 (ARF9).\\
## Solyc09g008320 & AT2G36870 & xyloglucan:xyloglucosyl transferase, putative / xyloglucan endotransglycosylase, putative / endo-xyloglucan transferase, putative; Identical to Probable xyloglucan endotransglucosylase/hydrolase protein 32 precursor (EC 2.4.1.207) (At-XTH32) (XTH-32) (XTH32) [Arabidopsis Thaliana] (GB:Q9SJL9); similar to XTR8 (xyloglucan:xyloglucosyl transferase 8), hydrolase, acting on glycosyl bonds [Arabidopsis thaliana] (TAIR:AT3G44990.1); similar to xyloglucan endotransglycosylase 1 [Litchi chinensis] (GB:ABK30788.1); contains InterPro domain Concanavalin A-like lectin/glucanase, subgroup; (InterPro:IPR013320); contains InterPro domain Concanavalin A-like lectin/glucanase; (InterPro:IPR008985); contains InterPro domain Glycoside hydrolase, family 16; (InterPro:IPR000757); contains InterPro domain Xyloglucan endo-transglycosylase, C-terminal; (InterPro:IPR010713)\\
## Solyc09g011560 & NA & NA\\
## \addlinespace
## Solyc09g014280 & AT5G01210 & transferase family protein; similar to transferase family protein [Arabidopsis thaliana] (TAIR:AT2G39980.1); similar to AER [Nicotiana tabacum] (GB:AAM73656.1); contains InterPro domain Transferase; (InterPro:IPR003480)\\
## Solyc09g018490 & NA & NA\\
## Solyc09g018540 & NA & NA\\
## Solyc09g055170 & NA & NA\\
## Solyc09g055550 & NA & NA\\
## \addlinespace
## Solyc09g074450 & NA & NA\\
## Solyc09g092760 & NA & NA\\
## Solyc10g054010 & NA & NA\\
## Solyc10g055540 & NA & NA\\
## Solyc11g005590 & AT3G54480 & Encodes an SKP1 interacting partner (SKIP5).\\
## \addlinespace
## Solyc11g007640 & NA & NA\\
## Solyc11g042420 & AT4G10040 & Encodes cytochrome c. Promoter directs preferential expression in vascular tissues of cotyledons, leaves, roots, and hypocotyls, and in anthers.\\
## Solyc11g064960 & NA & NA\\
## Solyc11g066100 & AT3G12580 & HSP70 (heat shock protein 70); ATP binding; similar to heat shock cognate 70 kDa protein 3 (HSC70-3) (HSP70-3) [Arabidopsis thaliana] (TAIR:AT3G09440.1); similar to heat shock cognate 70 kDa protein 2 (HSC70-2) (HSP70-2) [Arabidopsis thaliana] (TAIR:AT5G02490.1); similar to HSC70-1 (heat shock cognate 70 kDa protein 1), ATP binding [Arabidopsis thaliana] (TAIR:AT5G02500.1); similar to heat shock protein 70-3 [Nicotiana tabacum] (GB:AAR17080.1); similar to high molecular weight heat shock protein [Malus x domestica] (GB:AAF34134.1); similar to 70 kDa heat shock cognate protein 1 [Vigna radiata] (GB:AAS57912.1); contains InterPro domain Heat shock protein Hsp70; (InterPro:IPR001023); contains InterPro domain Heat shock protein 70; (InterPro:IPR013126)\\
## Solyc12g008950 & NA & NA\\
## \addlinespace
## Solyc12g010300 & NA & NA\\
## Solyc12g019370 & NA & NA\\
## Solyc12g019700 & NA & NA\\
## Solyc12g042480 & NA & NA\\
## Solyc12g044950 & AT3G12120 & Major enzyme responsible for the synthesis of 18:2 fatty acids in the endoplasmic reticulum. Contains His-rich motifs, which contribute to the interaction with the electron donor cytochrome b5.\\
## Solyc12g098660 & AT5G19850 & hydrolase, alpha/beta fold family protein; similar to hydrolase, alpha/beta fold family protein [Arabidopsis thaliana] (TAIR:AT5G38520.1); similar to Predicted hydrolase/acyltransferase (alpha/beta hydrolase superfamily) (ISS) [Ostreococcus tauri] (GB:CAL57930.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073); contains InterPro domain Alpha/beta hydrolase; (InterPro:IPR003089)\\
## \bottomrule
## \end{tabular}Cluster 11
clusterVis(11)## Using gene as id variables
clusterVis_PCA(11)
clusterVis_line(11)## Using gene, curated as id variables
#clusterGO(11)
y <- genesInClust(11, data.val2, annotation) ## [1] 63kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g201160 & AT4G27300 & S-locus protein kinase, putative; similar to ARK1 (A. THALIANA RECEPTOR KINASE I), kinase [Arabidopsis thaliana] (TAIR:AT1G65790.1); similar to S-locus protein kinase, putative [Arabidopsis thaliana] (TAIR:AT4G27290.1); similar to ARK3 (Arabidopsis Receptor Kinase 3), kinase [Arabidopsis thaliana] (TAIR:AT4G21380.1); similar to Protein kinase; S-locus glycoprotein; Curculin-like (mannose-binding) lectin; Apple-like [Medicago truncatula] (GB:ABE82224.1); similar to Protein kinase; S-locus glycoprotein; Curculin-like (mannose-binding) lectin; Apple-like [Medicago truncatula] (GB:ABE82222.1); similar to EGF-like, subtype 2; S-locus glycoprotein; Curculin-like (mannose-binding) lectin; Apple-like; Serine/threonine protein kinase, active site [Medicago truncatula] (GB:ABE86763.1); contains InterPro domain Apple-like; (InterPro:IPR003609); contains InterPro domain S-locus glycoprotein; (InterPro:IPR000858); contains InterPro domain Curculin-like (mannose-binding) lectin; (InterPro:IPR001480); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain PAN-like, type 2; (InterPro:IPR013227); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc01g006260 & AT1G04635 & EMB1687 (EMBRYO DEFECTIVE 1687); ribonuclease P; Identical to Probable ribonuclease P protein subunit 2 (EC 3.1.26.5) [Arabidopsis Thaliana] (GB:Q6AWV1;GB:O23021); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAV67833.1); similar to Os04g0295100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052398.1); similar to OSJNBa0041M21.1 [Oryza sativa (japonica cultivar-group)] (GB:CAD40443.2); contains InterPro domain Ribonuclease P-related protein; (InterPro:IPR002759)\\
## Solyc01g017200 & NA & NA\\
## Solyc01g020470 & ATMG00070 & NADH dehydrogenase subunit 9\\
## Solyc01g067200 & NA & NA\\
## \addlinespace
## Solyc01g102400 & AT1G09560 & germin-like protein (GLP5)\\
## Solyc02g061990 & NA & NA\\
## Solyc02g082650 & NA & NA\\
## Solyc02g082730 & AT3G06540 & GDP dissociation inhibitor family protein / Rab GTPase activator family protein; similar to ATGDI1 (Arabidopsis thaliana guanosine diphosphate dissociation inhibitor 1) [Arabidopsis thaliana] (TAIR:AT2G44100.2); similar to putative Rab escort protein (REP) [Dictyostelium discoideum AX4] (GB:XP_641266.1); similar to Os01g0269100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042697.1); contains InterPro domain Rab GTPase activator; (InterPro:IPR002005); contains InterPro domain Yeast Mrs6p protein; (InterPro:IPR000632)\\
## Solyc02g085500 & NA & NA\\
## \addlinespace
## Solyc02g088120 & AT5G15270 & KH domain-containing protein; similar to KH domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G14170.1); similar to KH, type 1 [Medicago truncatula] (GB:ABE82473.1); contains InterPro domain KH; (InterPro:IPR004087); contains InterPro domain KH, type 1; (InterPro:IPR004088)\\
## Solyc02g088510 & AT5G39410 & Identical to Probable mitochondrial saccharopine dehydrogenase At5g39410 (EC 1.5.1.9) (SDH) [Arabidopsis Thaliana] (GB:Q8LGI2;GB:Q9ZR98); similar to MGC84136 protein [Xenopus laevis] (GB:AAH74314.1); similar to MGC82870 protein [Xenopus laevis] (GB:AAH73574.1); similar to Os07g0597100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060175.1); contains InterPro domain Saccharopine dehydrogenase; (InterPro:IPR005097)\\
## Solyc03g006860 & AT5G51830 & pfkB-type carbohydrate kinase family protein; similar to pfkB-type carbohydrate kinase family protein [Arabidopsis thaliana] (TAIR:AT1G66430.1); similar to fructokinase (GB:AAB57733.1); contains InterPro domain PfkB; (InterPro:IPR011611); contains InterPro domain Carbohydrate kinase, PfkB; (InterPro:IPR002173); contains InterPro domain Ribokinase; (InterPro:IPR002139)\\
## Solyc03g007260 & AT5G53130 & member of Cyclic nucleotide gated channel family\\
## Solyc03g046250 & NA & NA\\
## \addlinespace
## Solyc03g058840 & NA & NA\\
## Solyc03g062910 & NA & NA\\
## Solyc03g063090 & NA & NA\\
## Solyc03g071650 & NA & NA\\
## Solyc03g078150 & AT2G41190 & amino acid transporter family protein; similar to amino acid transporter family protein [Arabidopsis thaliana] (TAIR:AT2G39130.1); similar to Amino acid/polyamine transporter II [Medicago truncatula] (GB:ABE77592.1); contains InterPro domain Amino acid/polyamine transporter II; (InterPro:IPR002422); contains InterPro domain Amino acid transporter, transmembrane; (InterPro:IPR013057)\\
## \addlinespace
## Solyc03g113980 & NA & NA\\
## Solyc03g115550 & NA & NA\\
## Solyc03g116100 & NA & NA\\
## Solyc03g117860 & NA & NA\\
## Solyc03g121550 & NA & NA\\
## \addlinespace
## Solyc04g005140 & AT1G26190 & phosphoribulokinase/uridine kinase family protein; similar to phosphoribulokinase/uridine kinase family protein [Arabidopsis thaliana] (TAIR:AT1G73980.1); similar to putative uridine kinase [Oryza sativa (japonica cultivar-group)] (GB:AAL87159.1); similar to Os02g0708200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047881.1); contains InterPro domain Phosphoribulokinase/uridine kinase; (InterPro:IPR006083); contains InterPro domain Uridine kinase; (InterPro:IPR000764); contains InterPro domain Adenylate cyclase; (InterPro:IPR008172)\\
## Solyc04g049650 & NA & NA\\
## Solyc04g056260 & NA & NA\\
## Solyc04g076460 & NA & NA\\
## Solyc04g080050 & AT5G35730 & EXS family protein / ERD1/XPR1/SYG1 family protein; similar to EXS family protein / ERD1/XPR1/SYG1 family protein [Arabidopsis thaliana] (TAIR:AT2G32295.1); similar to EXS, C-terminal [Medicago truncatula] (GB:ABD28452.1); similar to EXS family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA99182.2); similar to Os12g0595000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067180.1); contains InterPro domain EXS, C-terminal; (InterPro:IPR004342)\\
## \addlinespace
## Solyc04g081250 & AT1G75590 & auxin-responsive family protein; similar to auxin-responsive family protein [Arabidopsis thaliana] (TAIR:AT1G19840.1); similar to Auxin responsive SAUR protein [Medicago truncatula] (GB:ABE79953.1); contains InterPro domain Auxin responsive SAUR protein; (InterPro:IPR003676)\\
## Solyc05g005680 & AT1G10550 & predicted to function in cell wall modification\\
## Solyc05g006430 & NA & NA\\
## Solyc05g010780 & NA & NA\\
## Solyc05g041420 & AT5G55560 & protein kinase family protein; similar to WNK3 (Arabidopsis WNK kinase 3), kinase [Arabidopsis thaliana] (TAIR:AT3G48260.1); similar to Protein kinase [Medicago truncatula] (GB:ABE81462.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719)\\
## \addlinespace
## Solyc05g050820 & AT5G22060 & Co-chaperonin similar to E. coli DnaJ\\
## Solyc06g007580 & NA & NA\\
## Solyc06g011530 & NA & NA\\
## Solyc06g054240 & NA & NA\\
## Solyc06g073560 & AT3G45300 & Encodes isovaleryl-coenzyme a dehydrogenase.\\
## \addlinespace
## Solyc06g083150 & AT3G07370 & Encodes AtCHIP, a new class of E3 ubiquitin ligases with three tetratricopeptide repeats and a U-box domain, structurally similar to the animal CHIP proteins. Plays an important role in plant cellular metabolism under temperature stress conditions. Functions as an E3 ubiquitin ligase of protein phosphatase 2A subunits and alters plant response to abscisic acid treatment.\\
## Solyc07g018140 & AT2G18890 & kinase; similar to ATP binding / protein kinase/ protein serine/threonine kinase [Arabidopsis thaliana] (TAIR:AT5G57670.2); similar to Protein kinase [Medicago truncatula] (GB:ABE84011.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc07g026670 & AT2G19600 & member of Putative potassium proton antiporter family\\
## Solyc07g039440 & NA & NA\\
## Solyc07g040940 & AT5G57035 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT2G19410.1); similar to Os06g0574200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057924.1); similar to U-box domain containing protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF93477.1); similar to Os02g0218600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046306.1); contains InterPro domain UspA; (InterPro:IPR006016); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain U box; (InterPro:IPR003613)\\
## \addlinespace
## Solyc07g054330 & NA & NA\\
## Solyc07g065410 & NA & NA\\
## Solyc08g023540 & NA & NA\\
## Solyc08g074780 & AT4G34660 & SH3 domain-containing protein 2 (SH3P2); similar to SH3 domain-containing protein 3 (SH3P3) [Arabidopsis thaliana] (TAIR:AT4G18060.1); similar to SH3 [Medicago truncatula] (GB:ABE88784.1); contains InterPro domain Src homology-3; (InterPro:IPR001452)\\
## Solyc08g079030 & NA & NA\\
## \addlinespace
## Solyc08g081230 & AT5G41330 & potassium channel tetramerisation domain-containing protein; similar to potassium channel tetramerisation domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G09030.1); similar to BTB/POZ [Medicago truncatula] (GB:ABD28655.1); contains InterPro domain K+ channel tetramerisation; (InterPro:IPR003131); contains InterPro domain WD40-like; (InterPro:IPR011046); contains InterPro domain BTB; (InterPro:IPR000210)\\
## Solyc09g009960 & AT3G11470 & 4'-phosphopantetheinyl transferase family protein; similar to COP1-interacting protein-related [Arabidopsis thaliana] (TAIR:AT2G02770.1); similar to 4-phosphopantetheinyl transferase [Medicago truncatula] (GB:ABE85643.1); similar to Os08g0243100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061345.1); contains InterPro domain 4' (InterPro:IPR008278)\\
## Solyc09g018510 & AT5G58560 & phosphatidate cytidylyltransferase family protein; Identical to Probable phytol kinase 2, chloroplast precursor (EC 2.7.-.-) [Arabidopsis Thaliana] (GB:Q67ZM7;GB:Q67ZA1;GB:Q8LAW9;GB:Q9LV00); similar to VTE5 (VITAMIN E PATHWAY GENE5), phosphatidate cytidylyltransferase/ phytol kinase [Arabidopsis thaliana] (TAIR:AT5G04490.1); similar to Probable phytol kinase 3, chloroplast precursor (GB:Q2N2K0); contains InterPro domain Phosphatidate cytidylyltransferase; (InterPro:IPR000374)\\
## Solyc09g072680 & NA & NA\\
## Solyc10g079450 & AT3G10200 & dehydration-responsive protein-related; similar to dehydration-responsive protein-related [Arabidopsis thaliana] (TAIR:AT5G04060.1); similar to dehydration-responsive protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD46056.1); similar to Os05g0378800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055389.1); contains InterPro domain Protein of unknown function DUF248, methyltransferase putative; (InterPro:IPR004159); contains InterPro domain Ankyrin; (InterPro:IPR002110); contains InterPro domain Generic methyltransferase; (InterPro:IPR001601)\\
## \addlinespace
## Solyc10g080740 & NA & NA\\
## Solyc11g005920 & NA & NA\\
## Solyc11g013070 & NA & NA\\
## Solyc12g009830 & NA & NA\\
## Solyc12g017270 & NA & NA\\
## \addlinespace
## Solyc12g019390 & NA & NA\\
## Solyc12g027590 & AT3G04490 & exportin-related; similar to Os10g0477000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064853.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAK13158.1); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989)\\
## Solyc12g099830 & AT1G63500 & protein kinase-related; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G41260.1); similar to Protein kinase [Medicago truncatula] (GB:ABE92129.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \bottomrule
## \end{tabular}Cluster 12
clusterVis(12)## Using gene as id variables
clusterVis_PCA(12)
clusterVis_line(12)## Using gene, curated as id variables
#clusterGO(12)
y <- genesInClust(12, data.val2, annotation) ## [1] 89kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g096460 & NA & NA\\
## Solyc01g005780 & NA & NA\\
## Solyc01g006110 & AT5G53000 & PP2A-associated protein with a possible function in the chilling response\\
## Solyc01g006250 & NA & NA\\
## Solyc01g060210 & NA & NA\\
## \addlinespace
## Solyc01g066450 & AT4G15960 & epoxide hydrolase, putative; similar to epoxide hydrolase, putative [Arabidopsis thaliana] (TAIR:AT4G02340.1); similar to Os05g0273800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055069.1); similar to epoxide hydrolase (GB:AAA81892.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073); contains InterPro domain Epoxide hydrolase; (InterPro:IPR000639); contains InterPro domain Alpha/beta hydrolase; (InterPro:IPR003089)\\
## Solyc01g066820 & AT3G16630 & Kinesin-13A localized to entire Golgi stacks. Involved in trichome development.\\
## Solyc01g079960 & AT1G03220 & extracellular dermal glycoprotein, putative / EDGP, putative; similar to extracellular dermal glycoprotein, putative / EDGP, putative [Arabidopsis thaliana] (TAIR:AT1G03230.1); similar to putative xyloglucanase inhibitor [Solanum tuberosum] (GB:AAP84703.1); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007)\\
## Solyc01g081640 & NA & NA\\
## Solyc01g090170 & AT1G02130 & Belongs to the Rab1 GTPase subfamily. This small GTP-binding protein is required in ER to Golgi transportation.\\
## \addlinespace
## Solyc01g091840 & AT1G12600 & similar to ATUTR2/UTR2 (UDP-GALACTOSE TRANSPORTER 2) [Arabidopsis thaliana] (TAIR:AT4G23010.1); similar to hypothetical protein LOC664769 [Danio rerio] (GB:NP_001035084.1); similar to Os03g0118200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048771.1); contains InterPro domain UAA transporter; (InterPro:IPR013657)\\
## Solyc01g095680 & NA & NA\\
## Solyc01g100750 & AT1G56580 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G09310.1); similar to Os12g0563600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067038.1); similar to Os11g0683600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001068462.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAC15899.1); contains InterPro domain Protein of unknown function DUF538; (InterPro:IPR007493)\\
## Solyc01g103730 & NA & NA\\
## Solyc01g111140 & AT2G21150 & XAP5 family protein; similar to Os09g0535300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063780.1); similar to PREDICTED: similar to XAP-5 protein isoform 5 [Danio rerio] (GB:XP_706947.1); contains InterPro domain XAP5 protein; (InterPro:IPR007005)\\
## \addlinespace
## Solyc02g031980 & AT2G35035 & Encodes a urease accessory protein which is essential for the activation of plant urease.\\
## Solyc02g071300 & AT5G46460 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G02750.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABE87450.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc02g072010 & AT4G18840 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G74630.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABE79452.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc02g082300 & NA & NA\\
## Solyc02g082360 & AT3G55620 & EMB1624 (EMBRYO DEFECTIVE 1624); translation initiation factor; similar to eukaryotic translation initiation factor 6, putative / eIF-6, putative [Arabidopsis thaliana] (TAIR:AT2G39820.1); similar to Os07g0639800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060417.1); similar to putative eukaryotic translation initiation factor 6 [Trifolium pratense] (GB:BAE71264.1); contains InterPro domain Translation initiation factor IF6; (InterPro:IPR002769)\\
## \addlinespace
## Solyc02g085660 & NA & NA\\
## Solyc03g005630 & AT2G33420 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G25800.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G20010.2); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G04470.1); similar to hypothetical protein LOC_Os03g04560 [Oryza sativa (japonica cultivar-group)] (GB:ABF93881.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:AAP54227.2); similar to Protein of unknown function (DUF810) [Medicago truncatula] (GB:ABE87967.1); contains InterPro domain Protein of unknown function DUF810; (InterPro:IPR008528)\\
## Solyc03g007150 & NA & NA\\
## Solyc03g007400 & NA & NA\\
## Solyc03g025560 & AT2G17570 & undecaprenyl pyrophosphate synthetase family protein / UPP synthetase family protein; Identical to Dehydrodolichyl diphosphate synthase 6 (EC 2.5.1.-) (Dedol-PP synthase 6) [Arabidopsis Thaliana] (GB:Q8S2T1;GB:Q94EZ4;GB:Q9SHL2); similar to undecaprenyl pyrophosphate synthetase family protein / UPP synthetase family protein [Arabidopsis thaliana] (TAIR:AT5G60510.1); similar to cis-prenyltransferase [Periploca sepium] (GB:BAC16756.1); contains InterPro domain Di-trans-poly-cis-decaprenylcistransferase; (InterPro:IPR001441)\\
## \addlinespace
## Solyc03g044040 & AT5G28740 & transcription-coupled DNA repair protein-related; similar to crooked neck protein, putative / cell cycle protein, putative [Arabidopsis thaliana] (TAIR:AT5G45990.1); similar to XPA binding protein 2 [Danio rerio] (GB:NP_955466.1); similar to hypothetical protein LOC555321 [Danio rerio] (GB:NP_001038248.1); similar to Xab2 protein [Danio rerio] (GB:AAH56771.1); contains InterPro domain Tetratricopeptide region; (InterPro:IPR013026); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc03g083380 & AT5G53390 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G38995.1); similar to Protein of unknown function DUF1298 [Medicago truncatula] (GB:ABE82755.1); contains InterPro domain Protein of unknown function UPF0089; (InterPro:IPR004255); contains InterPro domain Protein of unknown function DUF1298; (InterPro:IPR009721)\\
## Solyc03g095200 & AT1G02060 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G37230.1); similar to Os02g0110400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045649.1); similar to Os02g0121900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045722.1); similar to Pentatricopeptide repeat [Medicago truncatula] (GB:ABE84479.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc03g112350 & NA & NA\\
## Solyc03g117290 & AT5G11090 & serine-rich protein-related; similar to serine-rich protein-related [Arabidopsis thaliana] (TAIR:AT5G25280.2); similar to unknown [Solanum tuberosum] (GB:ABA40431.1)\\
## \addlinespace
## Solyc03g118160 & AT5G61850 & Encodes transcriptional regulator that promotes the transition to flowering.Involved in floral meristem development.\\
## Solyc03g121760 & NA & NA\\
## Solyc04g007200 & AT1G68260 & thioesterase family protein; similar to thioesterase-related [Arabidopsis thaliana] (TAIR:AT1G68280.1); similar to Thioesterase superfamily [Medicago truncatula] (GB:ABE93263.1); contains InterPro domain Thioesterase superfamily; (InterPro:IPR006683)\\
## Solyc04g015200 & AT5G47810 & phosphofructokinase family protein; similar to phosphofructokinase family protein [Arabidopsis thaliana] (TAIR:AT4G26270.1); similar to putative pyrophosphate-dependent phosphofructo-1-kinase [Oryza sativa (japonica cultivar-group)] (GB:BAD86939.1); similar to Os04g0469500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053045.1); similar to OSIGBa0124N08.2 [Oryza sativa (indica cultivar-group)] (GB:CAH67040.1); contains InterPro domain Pyrophosphate-dependent phosphofructokinase TP0108; (InterPro:IPR012004); contains InterPro domain Phosphofructokinase; (InterPro:IPR000023)\\
## Solyc04g025300 & NA & NA\\
## \addlinespace
## Solyc04g064470 & NA & NA\\
## Solyc04g074080 & NA & NA\\
## Solyc04g078290 & AT4G37370 & member of CYP81D\\
## Solyc04g080950 & NA & NA\\
## Solyc04g082280 & AT1G76250 & similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAD03819.1)\\
## \addlinespace
## Solyc05g007800 & NA & NA\\
## Solyc05g015910 & AT5G14070 & glutaredoxin family protein; Identical to Glutaredoxin-C8 (AtGrxC8) (GRXC8) [Arabidopsis Thaliana] (GB:Q8LF89;GB:Q9FMU3); similar to ROXY1, thiol-disulfide exchange intermediate [Arabidopsis thaliana] (TAIR:AT3G02000.1); similar to glutaredoxin family protein [Musa acuminata] (GB:ABF69994.1); similar to Os04g0393500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052649.1); similar to Os02g0512400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046942.1); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Glutaredoxin; (InterPro:IPR002109); contains InterPro domain Thioredoxin fold; (InterPro:IPR012335); contains InterPro domain Glutaredoxin-like, plant II; (InterPro:IPR011905)\\
## Solyc05g018840 & NA & NA\\
## Solyc05g032780 & NA & NA\\
## Solyc05g047500 & NA & NA\\
## \addlinespace
## Solyc05g050560 & NA & NA\\
## Solyc06g005410 & NA & NA\\
## Solyc06g005660 & NA & NA\\
## Solyc06g005690 & AT5G59600 & pentatricopeptide (PPR) repeat-containing protein; similar to EMB2758 (EMBRYO DEFECTIVE 2758), binding [Arabidopsis thaliana] (TAIR:AT4G33990.1); similar to chloroplast import-associated channel protein homolog [Oryza sativa (japonica cultivar-group)] (GB:AAP06869.1); similar to Os03g0271300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049690.1); similar to pentatricopeptide, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF95212.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc06g043070 & NA & NA\\
## \addlinespace
## Solyc06g051650 & AT2G29960 & encodes a cyclophilin protein that exhibits peptidylprolyl cis/trans-isomerase and protein refolding activities that were sensitive to cyclosporin A. The protein interacts with GNOM in vitro and is localized to both the cytosolic and membrane fractions. The gene is expressed in the developing embryo.\\
## Solyc06g064660 & AT1G33770 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT4G10010.1); similar to transposon protein, putative, unclassified, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA96101.2); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc06g065870 & AT2G12400 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G25270.1); similar to H0306F03.12 [Oryza sativa (indica cultivar-group)] (GB:CAH68245.1); similar to Os04g0644000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054054.1); similar to Os02g0799300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048408.1)\\
## Solyc06g074380 & AT2G27590 & similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE93200.1); contains domain no description (G3D.3.40.50.150); contains domain S-adenosyl-L-methionine-dependent methyltransferases (SSF53335)\\
## Solyc06g076170 & AT5G24318 & hydrolase, hydrolyzing O-glycosyl compounds; similar to glycosyl hydrolase family 17 protein / beta-1,3-glucanase, putative [Arabidopsis thaliana] (TAIR:AT3G55430.1); similar to H0124B04.9 [Oryza sativa (indica cultivar-group)] (GB:CAJ86292.1); contains InterPro domain X8; (InterPro:IPR012946); contains InterPro domain Glycoside hydrolase, family 17; (InterPro:IPR000490)\\
## \addlinespace
## Solyc07g026710 & NA & NA\\
## Solyc07g026720 & AT2G41560 & encodes a calmodulin-regulated Ca(2+)-ATPase that improves salt tolerance in yeast. localized to the vacuole.\\
## Solyc07g042080 & AT1G19110 & inter-alpha-trypsin inhibitor heavy chain-related; similar to inter-alpha-trypsin inhibitor heavy chain-related [Arabidopsis thaliana] (TAIR:AT1G72500.1); similar to IMP dehydrogenase/GMP reductase [Medicago truncatula] (GB:ABE78212.1); similar to von Willebrand factor type A domain containing protein [Oryza sativa (japonica cultivar-group)] (GB:AAU89244.1); similar to von Willebrand factor type A domain containing protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF96527.1); contains InterPro domain von Willebrand factor, type A; (InterPro:IPR002035)\\
## Solyc07g045560 & NA & NA\\
## Solyc07g055240 & NA & NA\\
## \addlinespace
## Solyc07g061730 & AT1G30040 & Encodes a gibberellin 2-oxidase. AtGA2OX2 expression is responsive to cytokinin and KNOX activities.\\
## Solyc07g062900 & NA & NA\\
## Solyc07g064930 & NA & NA\\
## Solyc08g006610 & AT2G45320 & similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE93197.1); contains domain Nucleotide-diphospho-sugar transferases (SSF53448); contains domain no description (G3D.3.90.550.10)\\
## Solyc08g016610 & NA & NA\\
## \addlinespace
## Solyc08g022120 & NA & NA\\
## Solyc08g061310 & NA & NA\\
## Solyc08g062620 & AT4G33100 & Identical to Uncharacterized protein At4g33100 [Arabidopsis Thaliana] (GB:Q9SMZ9;GB:Q680I9); similar to Os09g0361700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062985.1); similar to p53-inducible cell-survival factor [Xenopus tropicalis] (GB:NP_001016268.1); contains InterPro domain Protein of unknown function UPF0203; (InterPro:IPR007918)\\
## Solyc08g066000 & AT4G32820 & binding; similar to TPR repeat [Medicago truncatula] (GB:ABE80801.1); similar to TPR repeat [Medicago truncatula] (GB:ABE90407.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAT85076.1); contains InterPro domain Tetratricopeptide region; (InterPro:IPR013026); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc08g076880 & NA & NA\\
## \addlinespace
## Solyc09g011820 & NA & NA\\
## Solyc09g014990 & AT2G38470 & Member of the plant WRKY transcription factor family. Regulates the antagonistic relationship between defense pathways mediating responses to P. syringae and necrotrophic fungal pathogens.\\
## Solyc09g064600 & NA & NA\\
## Solyc09g082560 & NA & NA\\
## Solyc09g090730 & AT4G13510 & Encodes a plasma membrane localized ammonium transporter.\\
## \addlinespace
## Solyc09g098190 & NA & NA\\
## Solyc10g049790 & NA & NA\\
## Solyc10g074510 & NA & NA\\
## Solyc10g080220 & NA & NA\\
## Solyc10g084660 & AT5G59890 & actin depolymerizing factor 4 (ADF4) mRNA, complete cds\\
## \addlinespace
## Solyc11g006010 & NA & NA\\
## Solyc11g008090 & NA & NA\\
## Solyc11g010210 & NA & NA\\
## Solyc11g012920 & NA & NA\\
## Solyc11g017290 & AT1G31430 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G22410.1); similar to hypothetical protein [Cleome spinosa] (GB:ABD96949.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc11g065420 & NA & NA\\
## Solyc11g065910 & NA & NA\\
## Solyc12g042930 & AT5G11420 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G25460.1); similar to unknown [Ricinus communis] (GB:CAB02653.1); contains InterPro domain Galactose-binding like; (InterPro:IPR008979); contains InterPro domain Protein of unknown function DUF642; (InterPro:IPR006946)\\
## Solyc12g099550 & NA & NA\\
## \bottomrule
## \end{tabular}Cluster 13
clusterVis(13)## Using gene as id variables
clusterVis_PCA(13)
clusterVis_line(13)## Using gene, curated as id variables
#clusterGO(13)
y <- genesInClust(13, data.val2, annotation) ## [1] 135kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc01g005410 & AT1G70680 & caleosin-related family protein; similar to caleosin-related family protein [Arabidopsis thaliana] (TAIR:AT1G70670.1); similar to Os06g0254700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057304.1); similar to putative ABA-induced protein [Cynodon dactylon] (GB:AAS48644.1); contains InterPro domain Caleosin related; (InterPro:IPR007736)\\
## Solyc01g008830 & AT5G21105 & L-ascorbate oxidase/ copper ion binding; similar to L-ascorbate oxidase, putative [Arabidopsis thaliana] (TAIR:AT5G21100.1); similar to ascorbate oxidase [Brassica juncea] (GB:AAF20933.1); similar to ascorbate oxidase [Brassica juncea] (GB:AAF20931.1); similar to ascorbate oxidase [Brassica juncea] (GB:AAF20932.1); contains InterPro domain Multicopper oxidase, copper-binding site; (InterPro:IPR002355); contains InterPro domain Cupredoxin; (InterPro:IPR008972); contains InterPro domain Multicopper oxidase, type 3; (InterPro:IPR011707); contains InterPro domain Multicopper oxidase, type 2; (InterPro:IPR011706); contains InterPro domain Multicopper oxidase, type 1; (InterPro:IPR001117)\\
## Solyc01g017250 & NA & NA\\
## Solyc01g088840 & NA & NA\\
## Solyc01g090100 & NA & NA\\
## \addlinespace
## Solyc01g095330 & NA & NA\\
## Solyc01g095720 & AT3G61680 & lipase class 3 family protein; similar to lipase class 3 family protein [Arabidopsis thaliana] (TAIR:AT1G02660.1); similar to lipase class 3 family protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD61517.1); contains InterPro domain Lipase, class 3; (InterPro:IPR002921)\\
## Solyc01g097480 & NA & NA\\
## Solyc01g098190 & AT3G05030 & member of Sodium proton exchanger family\\
## Solyc01g098690 & NA & NA\\
## \addlinespace
## Solyc01g098940 & AT3G10720 & pectinesterase, putative; similar to pectinesterase, putative [Arabidopsis thaliana] (TAIR:AT5G04970.1); similar to papillar cell-specific pectin methylesterase-like protein [Brassica napus] (GB:AAK84428.1); similar to Os01g0311800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042865.1); similar to putative pectinesterase [Oryza sativa (japonica cultivar-group)] (GB:AAT38097.1); contains InterPro domain Virulence factor, pectin lyase fold; (InterPro:IPR011050); contains InterPro domain Plant invertase/pectin methylesterase inhibitor; (InterPro:IPR007186); contains InterPro domain Pectinesterase; (InterPro:IPR000070)\\
## Solyc01g106180 & NA & NA\\
## Solyc01g107310 & AT4G33920 & protein phosphatase 2C family protein / PP2C family protein; similar to protein phosphatase 2C family protein / PP2C family protein [Arabidopsis thaliana] (TAIR:AT5G66080.1); similar to protein phosphatase 2C, putative / PP2C, putative [Arabidopsis thaliana] (TAIR:AT3G51370.1); similar to Os12g0580900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067133.1); similar to BTH-induced protein phosphatase 2C 2 K2 form [Oryza sativa (indica cultivar-group)] (GB:AAW29521.1); similar to Os03g0761100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051350.1); contains InterPro domain Protein phosphatase 2C-like; (InterPro:IPR001932)\\
## Solyc01g107820 & AT4G34131 & UGT73B3 (UDP-glucosyl transferase 73B3); UDP-glycosyltransferase/ abscisic acid glucosyltransferase/ transferase, transferring hexosyl groups; similar to UGT73B2, UDP-glucosyltransferase/ UDP-glycosyltransferase/ flavonol 3-O-glucosyltransferase [Arabidopsis thaliana] (TAIR:AT4G34135.1); similar to UGT73B1 (UDP-glucosyl transferase 73B1), UDP-glycosyltransferase/ abscisic acid glucosyltransferase [Arabidopsis thaliana] (TAIR:AT4G34138.1); similar to UGT73B5 (UDP-glucosyl transferase 73B5), UDP-glycosyltransferase/ transferase, transferring glycosyl groups [Arabidopsis thaliana] (TAIR:AT2G15480.1); similar to immediate-early salicylate-induced glucosyltransferase (GB:AAB36653.1); contains InterPro domain UDP-glucuronosyl/UDP-glucosyltransferase; (InterPro:IPR002213)\\
## Solyc02g066990 & NA & NA\\
## \addlinespace
## Solyc02g067170 & NA & NA\\
## Solyc02g072440 & NA & NA\\
## Solyc02g077620 & NA & NA\\
## Solyc02g079940 & AT4G21310 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G32280.1); similar to Os05g0433400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055637.1); similar to Os07g0545100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059913.1); similar to Os06g0114700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056606.1); contains InterPro domain Protein of unknown function DUF1218; (InterPro:IPR009606)\\
## Solyc02g082400 & NA & NA\\
## \addlinespace
## Solyc02g082540 & NA & NA\\
## Solyc02g084930 & NA & NA\\
## Solyc02g085310 & NA & NA\\
## Solyc02g086410 & NA & NA\\
## Solyc02g086500 & NA & NA\\
## \addlinespace
## Solyc02g088500 & NA & NA\\
## Solyc02g090340 & NA & NA\\
## Solyc02g091670 & NA & NA\\
## Solyc02g092660 & AT2G23093 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G49310.1); similar to Protein of unknown function DUF791 [Medicago truncatula] (GB:ABE85757.1); contains InterPro domain Protein of unknown function DUF791; (InterPro:IPR008509)\\
## Solyc02g092820 & AT2G14960 & encodes a protein similar to IAA-amido synthases. Lines carrying an insertion in this gene are hypersensitive to auxin.\\
## \addlinespace
## Solyc03g033480 & AT5G37055 & zinc finger (HIT type) family protein; similar to zinc finger protein [Nicotiana benthamiana] (GB:AAW83129.1); contains InterPro domain Zinc finger, HIT-type; (InterPro:IPR007529)\\
## Solyc03g034320 & AT5G38200 & catalytic; similar to catalytic [Arabidopsis thaliana] (TAIR:AT1G66860.1); similar to Os01g0138800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001041973.1); similar to Anthranilate synthase component II [Fusobacterium nucleatum subsp. nucleatum ATCC 25586] (GB:NP_603402.1); contains InterPro domain Peptidase C26; (InterPro:IPR011697)\\
## Solyc03g063190 & NA & NA\\
## Solyc03g063470 & AT2G07749 & Identical to Hypothetical mitochondrial protein AtMg01110 (ORF251) [Arabidopsis Thaliana] (GB:P92543); similar to hypothetical protein BrnapMp064 [Brassica napus] (GB:YP_717161.1); contains InterPro domain Mitovirus RNA-dependent RNA polymerase; (InterPro:IPR008686)\\
## Solyc03g063970 & NA & NA\\
## \addlinespace
## Solyc03g078110 & NA & NA\\
## Solyc03g083720 & NA & NA\\
## Solyc03g095780 & AT2G38310 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G05440.1); similar to hypothetical protein [Nicotiana tabacum] (GB:CAI84653.1); contains InterPro domain Bet v I allergen; (InterPro:IPR000916)\\
## Solyc03g095970 & AT2G47140 & short-chain dehydrogenase/reductase (SDR) family protein; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT2G47130.1); similar to 3-beta hydroxysteroid dehydrogenase [Di (GB:AAV68714.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc03g098400 & NA & NA\\
## \addlinespace
## Solyc03g111400 & AT5G50300 & xanthine/uracil/vitamin C permease family protein; similar to xanthine/uracil permease family protein [Arabidopsis thaliana] (TAIR:AT3G10960.1); similar to hypothetical protein CIMG_03715 [Coccidioides immitis RS] (GB:XP_001244274.1); similar to Os11g0427700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067781.1); contains InterPro domain Xanthine/uracil/vitamin C permease; (InterPro:IPR006043)\\
## Solyc03g111940 & NA & NA\\
## Solyc03g112130 & NA & NA\\
## Solyc03g112280 & AT5G50170 & C2 domain-containing protein / GRAM domain-containing protein; similar to C2 domain-containing protein / GRAM domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G03370.1); similar to no pollen; Osnop [Oryza sativa (japonica cultivar-group)] (GB:AAU09489.1); similar to OSIGBa0106G07.15 [Oryza sativa (indica cultivar-group)] (GB:CAH67319.1); similar to OSJNBa0022H21.21 [Oryza sativa (japonica cultivar-group)] (GB:CAE05501.2); contains InterPro domain C2; (InterPro:IPR000008); contains InterPro domain C2 calcium/lipid-binding region, CaLB; (InterPro:IPR008973); contains InterPro domain GRAM; (InterPro:IPR004182)\\
## Solyc03g113600 & NA & NA\\
## \addlinespace
## Solyc03g114180 & NA & NA\\
## Solyc03g116940 & NA & NA\\
## Solyc03g122170 & AT3G14130 & (S)-2-hydroxy-acid oxidase, peroxisomal, putative / glycolate oxidase, putative / short chain alpha-hydroxy acid oxidase, putative; similar to (S)-2-hydroxy-acid oxidase, peroxisomal, putative / glycolate oxidase, putative / short chain alpha-hydroxy acid oxidase, putative [Arabidopsis thaliana] (TAIR:AT3G14150.2); similar to glycolate oxidase [Brassica napus] (GB:AAV28535.1); similar to Os07g0616500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060276.1); contains InterPro domain FMN/related compound-binding core; (InterPro:IPR003009); contains InterPro domain Alpha-hydroxy acid dehydrogenase, FMN-dependent; (InterPro:IPR012133); contains InterPro domain FMN-dependent alpha-hydroxy acid dehydrogenase; (InterPro:IPR000262); contains InterPro domain FMN-dependent alpha-hydroxy acid dehydrogenase, active site; (InterPro:IPR008259)\\
## Solyc03g123890 & AT3G21180 & one of the type IIB calcium pump isoforms. encodes an autoinhibited Ca(2+)-ATPase that contains an N-terminal calmodulin binding autoinhibitory domain.\\
## Solyc04g005230 & NA & NA\\
## \addlinespace
## Solyc04g015630 & NA & NA\\
## Solyc04g016060 & NA & NA\\
## Solyc04g025900 & NA & NA\\
## Solyc04g071160 & AT1G43700 & Encodes a VirE2-interacting protein. VIP1 mediates nuclear translocation of VirE2 via its amino half, and interacts with histone H2A via it carboxyl half.\\
## Solyc04g072890 & AT1G78070 & WD-40 repeat family protein; similar to WD-40 repeat family protein [Arabidopsis thaliana] (TAIR:AT1G36070.1); similar to WD domain, G-beta repeat containing protein [Oryza sativa (japonica cultivar-group)] (GB:AAT85309.1)\\
## \addlinespace
## Solyc04g073950 & NA & NA\\
## Solyc04g076110 & AT5G49710 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G24590.1); similar to Os02g0781700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048312.1); similar to MADS box interactor-like [Oryza sativa (japonica cultivar-group)] (GB:BAD19444.1)\\
## Solyc04g077650 & AT3G12203 & SCPL17 (serine carboxypeptidase-like 17); serine carboxypeptidase; similar to SCPL16 (serine carboxypeptidase-like 16), serine carboxypeptidase [Arabidopsis thaliana] (TAIR:AT3G12220.1); similar to 1-O-sinapoylglucose:choline sinapoyltransferase [Brassica napus] (GB:AAQ91191.1); contains InterPro domain Peptidase S10, serine carboxypeptidase; (InterPro:IPR001563)\\
## Solyc05g013520 & NA & NA\\
## Solyc05g015060 & AT3G50940 & AAA-type ATPase family protein; similar to AAA-type ATPase family protein [Arabidopsis thaliana] (TAIR:AT3G50930.1); similar to AAA ATPase [Medicago truncatula] (GB:ABE84083.1); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain Polynucleotidyl transferase, Ribonuclease H fold; (InterPro:IPR012337); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## \addlinespace
## Solyc05g016340 & NA & NA\\
## Solyc05g026490 & AT1G70820 & phosphoglucomutase, putative / glucose phosphomutase, putative; similar to phosphoglucosamine mutase family protein [Arabidopsis thaliana] (TAIR:AT5G17530.2); similar to Os06g0476200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057639.1); similar to phosphoglucomutase [Spinacia oleracea] (GB:CAA53507.1); contains InterPro domain Phosphoglucomutase/phosphomannomutase alpha/beta/alpha domain II; (InterPro:IPR005845); contains InterPro domain Phosphoglucomutase/phosphomannomutase alpha/beta/alpha domain I; (InterPro:IPR005844); contains InterPro domain Phosphoglucomutase/phosphomannomutase alpha/beta/alpha domain III; (InterPro:IPR005846); contains InterPro domain Phosphoglucomutase/phosphomannomutase; (InterPro:IPR005841)\\
## Solyc05g043390 & NA & NA\\
## Solyc05g047700 & NA & NA\\
## Solyc05g055020 & NA & NA\\
## \addlinespace
## Solyc06g007890 & NA & NA\\
## Solyc06g009110 & AT4G33490 & pepsin A; similar to nucellin protein, putative [Arabidopsis thaliana] (TAIR:AT1G44130.1); similar to nucellin-like protein [Daucus carota] (GB:BAD80835.1); contains InterPro domain Peptidase A1, pepsin; (InterPro:IPR001461); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007)\\
## Solyc06g009390 & AT3G62260 & protein phosphatase 2C, putative / PP2C, putative; similar to protein phosphatase type 2C [Arabidopsis thaliana] (TAIR:AT1G48040.1); similar to Protein phosphatase 2C [Medicago truncatula] (GB:ABE82399.1); contains InterPro domain Protein phosphatase 2C-like; (InterPro:IPR001932)\\
## Solyc06g035580 & AT5G51950 & glucose-methanol-choline (GMC) oxidoreductase family protein; similar to glucose-methanol-choline (GMC) oxidoreductase family protein [Arabidopsis thaliana] (TAIR:AT5G51930.1); similar to glucose-methanol-choline (GMC) oxidoreductase family protein [Arabidopsis thaliana] (TAIR:AT3G56060.1); similar to putative mandelonitrile lyase [Oryza sativa (japonica cultivar-group)] (GB:BAD29242.1); similar to Os04g0573100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053612.1); contains InterPro domain GMC oxidoreductase; (InterPro:IPR007867); contains InterPro domain Glucose-methanol-choline oxidoreductase; (InterPro:IPR000172); contains InterPro domain Alcohol oxidase; (InterPro:IPR012132)\\
## Solyc06g050410 & NA & NA\\
## \addlinespace
## Solyc06g050840 & AT2G40435 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G56220.1); similar to Os03g0338400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050055.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAC10078.1); similar to Os05g0337200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055237.1); contains domain Regulatory domain in the aminoacid metabolism (SSF55021)\\
## Solyc06g051660 & NA & NA\\
## Solyc06g054310 & NA & NA\\
## Solyc06g060740 & NA & NA\\
## Solyc06g062320 & AT1G12200 & flavin-containing monooxygenase family protein / FMO family protein; similar to flavin-containing monooxygenase family protein / FMO family protein [Arabidopsis thaliana] (TAIR:AT1G62580.1); similar to FMO-like protein [Thellun (GB:ABJ98059.1); contains InterPro domain NAD-binding site; (InterPro:IPR000205); contains InterPro domain Pyridine nucleotide-disulphide oxidoreductase, class I; (InterPro:IPR001100); contains InterPro domain Molybdenum cofactor biosynthesis; (InterPro:IPR009036); contains InterPro domain Adrenodoxin reductase; (InterPro:IPR000759); contains InterPro domain Flavin-containing monooxygenase FMO; (InterPro:IPR000960); contains InterPro domain Fumarate reductase/succinate dehydrogenase flavoprotein, N-terminal; (InterPro:IPR003953); contains InterPro domain FAD-dependent pyridine nucleotide-disulphide oxidoreductase; (InterPro:IPR013027)\\
## \addlinespace
## Solyc06g069220 & AT3G18490 & aspartyl protease family protein; similar to aspartyl protease family protein [Arabidopsis thaliana] (TAIR:AT1G25510.1); similar to Os01g0598600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043485.1); similar to unknow protein [Oryza sativa (japonica cultivar-group)] (GB:AAT38006.1); similar to Os01g0140100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001041979.1); contains InterPro domain Peptidase A1, pepsin; (InterPro:IPR001461); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007)\\
## Solyc06g069630 & NA & NA\\
## Solyc06g072230 & AT1G17860 & trypsin and protease inhibitor family protein / Kunitz family protein; similar to trypsin and protease inhibitor family protein / Kunitz family protein [Arabidopsis thaliana] (TAIR:AT1G73260.1); similar to Lemir [Lycopersicon esculentum] (GB:AAC63057.1); contains InterPro domain Proteinase inhibitor I3, Kunitz legume; (InterPro:IPR002160); contains InterPro domain Kunitz inhibitor ST1-like; (InterPro:IPR011065)\\
## Solyc06g074810 & NA & NA\\
## Solyc06g082320 & NA & NA\\
## \addlinespace
## Solyc07g005480 & NA & NA\\
## Solyc07g008620 & NA & NA\\
## Solyc07g009480 & NA & NA\\
## Solyc07g041790 & AT5G64270 & splicing factor, putative; similar to PDF2 (PROTEIN PHOSPHATASE 2A SUBUNIT A3), protein phosphatase type 2A regulator [Arabidopsis thaliana] (TAIR:AT1G13320.1); similar to RCN1 (ROOTS CURL IN NPA), protein phosphatase type 2A regulator [Arabidopsis thaliana] (TAIR:AT1G25490.1); similar to U2 small nuclear ribonucleoprotein, putative [Aedes aegypti] (GB:EAT45112.1); similar to PREDICTED: splicing factor 3b, subunit 1 [Pan troglodytes] (GB:XP_516006.2); similar to PREDICTED: similar to CG2807-PA isoform 1 [Apis mellifera] (GB:XP_623732.1); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain HEAT; (InterPro:IPR000357)\\
## Solyc07g045210 & AT2G04280 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G12700.1); similar to Os10g0456400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064754.1); similar to Proteinase inhibitor I4, serpin [Medicago truncatula] (GB:ABE79305.1); contains domain YggU-like (SSF69786)\\
## \addlinespace
## Solyc07g052680 & NA & NA\\
## Solyc07g055780 & AT2G30900 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G78710.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G42570.1); similar to unknown [Pisum sativum] (GB:ABA29158.1); similar to Os01g0652100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043736.1); similar to Protein of unknown function DUF231, plant [Medicago truncatula] (GB:ABE82889.1); contains InterPro domain Protein of unknown function DUF231, plant; (InterPro:IPR004253)\\
## Solyc07g056630 & NA & NA\\
## Solyc07g063920 & AT3G20660 & carbohydrate transporter/ sugar porter; similar to sugar transporter family protein [Arabidopsis thaliana] (TAIR:AT1G73220.1); similar to OSJNBb0015D13.11 [Oryza sativa (japonica cultivar-group)] (GB:CAI44640.1); similar to H0105C05.5 [Oryza sativa (indica cultivar-group)] (GB:CAH68069.1); contains InterPro domain Major facilitator superfamily; (InterPro:IPR007114); contains InterPro domain Major facilitator superfamily MFS_1; (InterPro:IPR011701)\\
## Solyc08g005640 & NA & NA\\
## \addlinespace
## Solyc08g008080 & AT3G61460 & Encodes a novel ring finger protein and forms an N-terminal hydrophobic domain and a C-terminal RING-H2 signature. Expression is down regulated by brassinolide.\\
## Solyc08g048350 & NA & NA\\
## Solyc08g048420 & NA & NA\\
## Solyc08g069140 & AT2G24610 & member of Cyclic nucleotide gated channel family\\
## Solyc08g074680 & NA & NA\\
## \addlinespace
## Solyc08g077260 & AT1G32410 & vacuolar protein sorting 55 family protein / VPS55 family protein; similar to vacuolar protein sorting 55 family protein / VPS55 family protein [Arabidopsis thaliana] (TAIR:AT3G11530.2); similar to Vacuolar protein sorting 55 [Medicago truncatula] (GB:ABE93067.1); contains InterPro domain Vacuolar protein sorting 55; (InterPro:IPR007262)\\
## Solyc08g077360 & AT3G60190 & At3g60190 encodes Arabidopsis dynamin-related protein 1E, DRP1E, also known as EDR3, ADL4 and ADL1E, which is 624 amino acid residues long, has a predicted mass of 69.8 kDa and a pI of 7.5. Dynamin-related protein 1E belongs to a plant-specific subclass of dynamin-related proteins (DRP1), consisting of five members in Arabidopsis (A, B, C, D, E). This class is characterized by having an N-terminal GTPase domain, a central ‘dynamin 2‘ domain and a C-terminal GTPase effector domain (GED), a typical structure for plant dynamin-related proteins. However, this class lacks a PH domain and a proline-rich domain, which are found in classical animal dynamin-like proteins. Based on work on animal dynamins, the plant DRP1 proteins should be able to form polymeric structures that wrap around membranes to facilitate membrane tubulation and pinching off of vesicles, processes that are essential to vesicle trafficking and membrane compartmentalization. The edr3 mutation causes a P77L substitution in the G2 motif of the GTPase domain of DRP1E. edr3 mutant Arabidopsis plants display enhanced cell death in response to powdery mildew infection.\\
## Solyc08g078210 & AT5G47240 & ATNUDT8 (Arabidopsis thaliana Nudix hydrolase homolog 8); hydrolase; Identical to Nudix hydrolase 8 (EC 3.6.1.-) (AtNUDT8) (NUDT8) [Arabidopsis Thaliana] (GB:Q8L7W2;GB:Q8LAJ0;GB:Q9LVT5); similar to ATNUDT2 (Arabidopsis thaliana Nudix hydrolase homolog 2), ADP-ribose diphosphatase/ NAD binding / hydrolase [Arabidopsis thaliana] (TAIR:AT5G47650.1); similar to hydrolase, NUDIX family protein [Brassica oleracea] (GB:ABD64957.1); contains InterPro domain NUDIX hydrolase; (InterPro:IPR000086); contains InterPro domain Anti-sense to fibroblast growth factor protein GFG; (InterPro:IPR003293)\\
## Solyc08g082090 & NA & NA\\
## Solyc09g008250 & NA & NA\\
## \addlinespace
## Solyc09g015000 & AT5G59720 & encodes a low molecular weight heat shock protein that contains the heat shock element in the promoter region. Expression is induced in response to heat shock.\\
## Solyc09g018280 & AT5G01820 & Encodes a CBL-interacting serine/threonine protein kinase.\\
## Solyc09g055710 & NA & NA\\
## Solyc09g059630 & AT1G04850 & ubiquitin-associated (UBA)/TS-N domain-containing protein; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G48690.1); similar to PUG; Zinc finger, C2H2-type; UBA-like [Medicago truncatula] (GB:ABE83604.1); contains InterPro domain UBA-like; (InterPro:IPR009060); contains InterPro domain PUG; (InterPro:IPR006567); contains InterPro domain Ubiquitin-associated; (InterPro:IPR000449)\\
## Solyc09g065870 & AT5G63970 & copine-related; similar to copine-related [Arabidopsis thaliana] (TAIR:AT3G01650.1); similar to Os01g0960500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045467.1); similar to copine-like protein [Oryza sativa (japonica cultivar-group)] (GB:ABG34341.1); similar to Os12g0288400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066593.1); contains InterPro domain Copine; (InterPro:IPR010734); contains InterPro domain von Willebrand factor, type A; (InterPro:IPR002035); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## \addlinespace
## Solyc09g075690 & NA & NA\\
## Solyc09g075730 & AT3G05990 & leucine-rich repeat family protein; similar to leucine-rich repeat family protein [Arabidopsis thaliana] (TAIR:AT3G19230.1); similar to Os03g0184400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049189.1); similar to Putative protein with similarity to putative protein kinases [Oryza sativa] (GB:AAK92623.1); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc09g082960 & NA & NA\\
## Solyc09g090550 & AT2G33385 & ARPC2B (actin-related protein C2B); structural molecule; similar to DIS2 (DISTORTED TRICHOMES 2), structural molecule [Arabidopsis thaliana] (TAIR:AT1G30825.1); similar to Os04g0512300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053297.1); similar to Actin-related protein Arp2/3 complex, subunit ARPC2 (ISS) [Ostreococcus tauri] (GB:CAL53053.1); contains InterPro domain Arp2/3 complex, 34kDa subunit p34-Arc; (InterPro:IPR007188)\\
## Solyc09g091700 & NA & NA\\
## \addlinespace
## Solyc10g007100 & AT3G23560 & Member of the multidrug and toxic compound extrusion (MATE) family, protects roots from inhibitory compounds.\\
## Solyc10g008470 & AT1G03620 & phagocytosis and cell motility protein ELMO1-related; similar to phagocytosis and cell motility protein ELMO1-related [Arabidopsis thaliana] (TAIR:AT3G03610.1); similar to B1160F02.16 [Oryza sativa (japonica cultivar-group)] (GB:CAE75985.1); similar to Os04g0101700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051992.1); contains InterPro domain Engulfment and cell motility, ELM; (InterPro:IPR006816)\\
## Solyc10g009520 & NA & NA\\
## Solyc10g039210 & NA & NA\\
## Solyc10g045050 & AT1G74030 & enolase, putative; similar to LOS2 (Low expression of osmotically responsive genes 1), phosphopyruvate hydratase [Arabidopsis thaliana] (TAIR:AT2G36530.1); similar to Os09g0375000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063034.1); similar to phosphopyruvate hydratase [Dictyostelium discoideum AX4] (GB:XP_639231.1); contains InterPro domain Enolase; (InterPro:IPR000941)\\
## \addlinespace
## Solyc10g050920 & NA & NA\\
## Solyc10g080640 & AT3G13600 & calmodulin-binding family protein; similar to calmodulin-binding family protein [Arabidopsis thaliana] (TAIR:AT3G58480.1); similar to IQ calmodulin-binding re (GB:ABE79293.1); contains InterPro domain IQ calmodulin-binding region; (InterPro:IPR000048)\\
## Solyc10g083230 & NA & NA\\
## Solyc10g083470 & AT4G12570 & UPL5 (UBIQUITIN PROTEIN LIGASE 5); ubiquitin-protein ligase; similar to UPL1 (UBIQUITIN-PROTEIN LIGASE 1), ubiquitin-protein ligase [Arabidopsis thaliana] (TAIR:AT1G55860.1); similar to HECT-domain (ubiquitin-transferase), putative [Medicago truncatula] (GB:ABD32998.1); contains InterPro domain HECT; (InterPro:IPR000569); contains InterPro domain Ubiquitin; (InterPro:IPR000626)\\
## Solyc10g083780 & NA & NA\\
## \addlinespace
## Solyc11g007340 & NA & NA\\
## Solyc11g011240 & AT4G36810 & Encodes a protein with geranylgeranyl pyrophosphate synthase activity involved in isoprenoid biosynthesis. The enzyme appears to be targeted to the chloroplast in epidermal cells and guard cells of leaves, and in etioplasts in roots.\\
## Solyc11g011970 & AT1G05000 & tyrosine specific protein phosphatase family protein; Identical to Probable tyrosine-protein phosphatase At1g05000 (EC 3.1.3.48) [Arabidopsis Thaliana] (GB:Q9ZVN4); similar to tyrosine specific protein phosphatase family protein [Arabidopsis thaliana] (TAIR:AT2G32960.1); similar to tyrosine specific protein phosphatase family protein [Capsicum annuum] (GB:AAX20039.1); contains InterPro domain Putative tyrosine phosphatase; (InterPro:IPR004861); contains InterPro domain Tyrosine specific protein phosphatase and dual specificity protein phosphatase; (InterPro:IPR000387)\\
## Solyc11g065600 & AT5G13870 & EXGT-A4, endoxyloglucan transferase,\\
## Solyc11g066970 & AT2G27740 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G36410.2); similar to hypothetical protein [Ipomoea trifida] (GB:AAS79606.1); contains InterPro domain Protein of unknown function DUF662; (InterPro:IPR007033)\\
## \addlinespace
## Solyc11g069850 & NA & NA\\
## Solyc11g072800 & AT5G60010 & ferric reductase-like transmembrane component family protein; similar to RHD2 (ROOT HAIR DEFECTIVE 2) [Arabidopsis thaliana] (TAIR:AT5G51060.1); similar to ATRBOH F (RESPIRATORY BURST OXIDASE PROTEIN F), NAD(P)H oxidase [Arabidopsis thaliana] (TAIR:AT1G64060.1); similar to ferric reductase-like transmembrane component family protein [Arabidopsis thaliana] (TAIR:AT3G45810.1); similar to putative respiratory burst oxidase [Oryza sativa (japonica cultivar-group)] (GB:BAD73392.1); similar to NOX1 [Striga asiatica] (GB:ABG35770.1); similar to respiratory burst oxidase protein A [Zea mays] (GB:ABH85405.1); contains InterPro domain EF-Hand type; (InterPro:IPR011992); contains InterPro domain Cytochrome b-245, heavy chain; (InterPro:IPR000778); contains InterPro domain Calcium-binding EF-hand; (InterPro:IPR002048); contains InterPro domain Ferric reductase, NAD binding; (InterPro:IPR013121); contains InterPro domain FAD-binding 8; (InterPro:IPR013112); contains InterPro domain Ferric reductase-like transmembrane component, N-terminal; (InterPro:IPR013130); contains InterPro domain Ferric reductase-like transmembrane component; (InterPro:IPR002916); contains InterPro domain NADPH oxidase Respiratory burst; (InterPro:IPR013623)\\
## Solyc11g072850 & NA & NA\\
## Solyc11g072910 & AT3G46290 & protein kinase, putative; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G54380.1); similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT5G59700.1); similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT4G39110.1); similar to Protein kinase [Medicago truncatula] (GB:ABE93789.1); similar to putative receptor-like protein kinase [Oryza sativa (japonica cultivar-group)] (GB:AAT07653.1); similar to putative receptor-like protein kinase [Oryza sativa (japonica cultivar-group)] (GB:AAN64488.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc12g006060 & NA & NA\\
## \addlinespace
## Solyc12g008400 & NA & NA\\
## Solyc12g008480 & NA & NA\\
## Solyc12g009000 & NA & NA\\
## Solyc12g042830 & NA & NA\\
## Solyc12g088370 & AT1G27760 & interferon-related developmental regulator family protein / IFRD protein family; similar to Os07g0588000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060139.1); similar to Os03g0448700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050472.1); similar to interferon-related protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD17186.1); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain Four-helical cytokine; (InterPro:IPR009079); contains InterPro domain Interferon-related protein conserved region; (InterPro:IPR006921); contains InterPro domain Interferon-related developmental regulator; (InterPro:IPR007701)\\
## \bottomrule
## \end{tabular}Cluster 14
clusterVis(14)## Using gene as id variables
clusterVis_PCA(14)
clusterVis_line(14)## Using gene, curated as id variables
#clusterGO(14)
y <- genesInClust(14, data.val2, annotation) ## [1] 55kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g026160 & AT5G23980 & Encodes a ferric chelate reductase that is expressed at low levels in roots,shoots and cotyledons, but not flowers. Its transcription is regulated by FIT1.\\
## Solyc00g272810 & NA & NA\\
## Solyc01g008730 & AT5G06950 & Transcription factor of the B-ZIP family that has high affinity for C-box motifs. Interacts with NPR1 and may regulate PR gene expression. Phosphorylated by a CK2-like protein in vitro. Phosphorylation is enhanced by salicylic acid treatment.\\
## Solyc01g010910 & NA & NA\\
## Solyc01g067190 & NA & NA\\
## \addlinespace
## Solyc01g088770 & AT1G02160 & similar to Os04g0665000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054174.1); contains InterPro domain CHCH; (InterPro:IPR010625)\\
## Solyc01g095140 & AT1G01470 & Encodes late-embryogenesis abundant protein whose mRNA levels are induced in response to wounding and light stress. Might be involved in protection against dessication.\\
## Solyc01g095150 & AT2G46140 & late embryogenesis abundant protein, putative / LEA protein, putative; Identical to Desiccation-related protein At2g46140 (LEA type-2 family protein At2g46140) [Arabidopsis Thaliana] (GB:O82355;GB:Q8LC67); similar to LEA14 (LATE EMBRYOGENESIS ABUNDANT 14) [Arabidopsis thaliana] (TAIR:AT1G01470.1); similar to Chain A, Solution Structure Of A Putative Late Embryogenesis Abundant (Lea) Protein At2g46140.1 (GB:1YYC); contains InterPro domain Late embryogenesis abundant protein 2; (InterPro:IPR004864)\\
## Solyc01g104880 & AT5G57190 & phosphatidylserine decarboxylase, putative; similar to PSD2 (Phosphatidylserine decarboxylase 2) [Arabidopsis thaliana] (TAIR:AT4G25970.1); similar to phosphatidylserine decarboxylase-like [Oryza sativa (japonica cultivar-group)] (GB:BAD87120.1); similar to Os01g0959800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045461.1); contains InterPro domain Phosphatidylserine decarboxylase-related; (InterPro:IPR003817); contains InterPro domain EF-Hand type; (InterPro:IPR011992); contains InterPro domain Calcium-binding EF-hand; (InterPro:IPR002048); contains InterPro domain C2 calcium/lipid-binding region, CaLB; (InterPro:IPR008973); contains InterPro domain Phosphatidylserine decarboxylase; (InterPro:IPR005221)\\
## Solyc01g112340 & AT4G38200 & guanine nucleotide exchange family protein; similar to guanine nucleotide exchange family protein [Arabidopsis thaliana] (TAIR:AT3G60860.1); similar to EDA10 (embryo sac development arrest 10), guanyl-nucleotide exchange factor [Arabidopsis thaliana] (TAIR:AT1G01960.1); similar to guanine nucleotide exchange family protein [Arabidopsis thaliana] (TAIR:AT4G35380.1); similar to putative guanine nucleotide-exchange protein GEP2 [Oryza sativa (japonica cultivar-group)] (GB:BAD35378.1); similar to putative guanine nucleotide-exchange protein GEP2 [Oryza sativa (japonica cultivar-group)] (GB:BAD15400.1); similar to guanine nucleotide-exchange protein GEP2 [Oryza sativa] (GB:AAM00191.1); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain SEC7-like; (InterPro:IPR000904)\\
## \addlinespace
## Solyc02g010630 & NA & NA\\
## Solyc02g038740 & AT1G76490 & Encodes a 3-hydroxy-3-methylglutaryl coenzyme A reductase, which is involved in melavonate biosynthesis and performs the first committed step in isoprenoid biosynthesis. Expression is activated in dark in leaf tissue but not controlled by light in the root (confine\\
## Solyc02g063290 & AT1G66740 & Located on the SSL2 region of Arabidopsis thaliana, which is homeologous to the Brassica S locus for self incompatibility. Expressed in both vegetative and reproductive organs suggesting AtSP7 might not be involved in self incompatibility.\\
## Solyc02g065030 & NA & NA\\
## Solyc02g076700 & NA & NA\\
## \addlinespace
## Solyc02g077100 & NA & NA\\
## Solyc02g085590 & NA & NA\\
## Solyc03g007840 & AT3G49142 & NA\\
## Solyc03g058910 & AT1G14420 & AT59 (Arabidopsis homolog of tomato LAT59); lyase/ pectate lyase; Identical to Probable pectate lyase 3 precursor (EC 4.2.2.2) (Pectate lyase A2) (AT59) [Arabidopsis Thaliana] (GB:Q9M9S2;GB:O23665); similar to pectate lyase family protein [Arabidopsis thaliana] (TAIR:AT2G02720.1); similar to Probable pectate lyase P59 precursor (GB:P15722); contains InterPro domain Virulence factor, pectin lyase fold; (InterPro:IPR011050); contains InterPro domain Pectate lyase/Amb allergen; (InterPro:IPR002022); contains InterPro domain Pectate lyase, N-terminal; (InterPro:IPR007524); contains InterPro domain Pectolytic enzyme, Pectin lyase fold; (InterPro:IPR012334)\\
## Solyc03g065240 & NA & NA\\
## \addlinespace
## Solyc03g119120 & AT4G02750 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G56690.1); similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G09410.1); similar to hypothetical protein MtrDRAFT_AC139526g16v1 [Medicago truncatula] (GB:ABE80147.1); similar to hypothetical protein MtrDRAFT_AC139526g18v1 [Medicago truncatula] (GB:ABE80149.1); similar to pentatricopeptide, putative [Oryza sativa (japonica cultivar-group)] (GB:ABF95626.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc03g121060 & NA & NA\\
## Solyc04g009880 & NA & NA\\
## Solyc04g026310 & NA & NA\\
## Solyc04g054990 & NA & NA\\
## \addlinespace
## Solyc04g078010 & NA & NA\\
## Solyc05g041810 & NA & NA\\
## Solyc05g051560 & NA & NA\\
## Solyc06g048820 & AT3G10985 & A senescence-associated gene whose expression is induced in response to treatment with Nep1, a fungal protein that causes necrosis.\\
## Solyc06g060410 & NA & NA\\
## \addlinespace
## Solyc06g069430 & AT5G60910 & MADS box gene negatively regulated by APETALA1\\
## Solyc06g084380 & AT4G02940 & oxidoreductase, 2OG-Fe(II) oxygenase family protein; similar to oxidoreductase, 2OG-Fe(II) oxygenase family protein [Arabidopsis thaliana] (TAIR:AT2G48080.1); similar to Os05g0401500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055490.1); similar to hydroxyproline-rich glycoprotein family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:AAP51882.2); similar to Os10g0116900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064055.1); contains InterPro domain 2OG-Fe(II) oxygenase; (InterPro:IPR005123)\\
## Solyc06g084480 & AT2G47940 & Encodes DegP2 protease (DEGP2); nuclear gene for chloroplast product.\\
## Solyc07g021200 & NA & NA\\
## Solyc07g032670 & NA & NA\\
## \addlinespace
## Solyc07g062450 & AT3G14910 & similar to Os09g0315800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062848.1); similar to PREDICTED: similar to rGAP-iso [Gallus gallus] (GB:XP_419406.2); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc08g006050 & NA & NA\\
## Solyc08g006180 & NA & NA\\
## Solyc08g048370 & NA & NA\\
## Solyc08g061910 & NA & NA\\
## \addlinespace
## Solyc08g066120 & AT3G03710 & Mutants impaired in the expression of this gene have been selected through their resistance to fosmidomycin, a strong inhibitor of DXR, an enzyme of the methylerythritol-dependent IPP biosynthesis pathway. The pathway enzymes were upregulated in the mutant seedlings.\\
## Solyc08g077000 & NA & NA\\
## Solyc08g081660 & NA & NA\\
## Solyc08g082440 & AT4G10960 & Encodes a protein with UDP-D-glucose 4-epimerase activity.\\
## Solyc09g014930 & NA & NA\\
## \addlinespace
## Solyc09g059020 & AT4G13010 & oxidoreductase, zinc-binding dehydrogenase family protein; Identical to Putative chloroplastic quinone-oxidoreductase homolog (EC 1.-.-.-) [Arabidopsis Thaliana] (GB:Q9SV68); similar to oxidoreductase, zinc-binding dehydrogenase family protein [Arabidopsis thaliana] (TAIR:AT1G23740.1); similar to ripening regulated protein-like [Solanum tuberosum] (GB:ABA81857.1); contains InterPro domain GroES-like; (InterPro:IPR011032); contains InterPro domain Alcohol dehydrogenase superfamily, zinc-containing; (InterPro:IPR002085); contains InterPro domain Alcohol dehydrogenase, zinc-binding; (InterPro:IPR013149); contains InterPro domain Alcohol dehydrogenase GroES-like; (InterPro:IPR013154)\\
## Solyc09g064870 & AT1G03270 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G14240.1); similar to Os05g0395300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055462.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAT07635.1); contains InterPro domain Protein of unknown function DUF21; (InterPro:IPR002550); contains InterPro domain CBS; (InterPro:IPR000644)\\
## Solyc09g075680 & NA & NA\\
## Solyc10g054070 & NA & NA\\
## Solyc10g077090 & NA & NA\\
## \addlinespace
## Solyc10g081350 & AT3G56850 & Encodes an ABA-responsive element binding protein with a bZIP domain. Located in the nucleus and expressed in the embryo during seed maturation.\\
## Solyc10g086030 & NA & NA\\
## Solyc12g008820 & NA & NA\\
## Solyc12g049400 & NA & NA\\
## Solyc12g057020 & AT3G53010 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G34215.2); similar to Os03g0857500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051956.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAP21393.1); contains InterPro domain Protein of unknown function DUF303, acetylesterase putative; (InterPro:IPR005181)\\
## \bottomrule
## \end{tabular}Cluster 15
clusterVis(15)## Using gene as id variables
clusterVis_PCA(15)
clusterVis_line(15)## Using gene, curated as id variables
#clusterGO(15)
y <- genesInClust(15, data.val2, annotation) ## [1] 87kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc01g010220 & NA & NA\\
## Solyc01g087010 & AT3G53010 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G34215.2); similar to Os03g0857500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051956.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAP21393.1); contains InterPro domain Protein of unknown function DUF303, acetylesterase putative; (InterPro:IPR005181)\\
## Solyc01g087330 & NA & NA\\
## Solyc01g089910 & AT5G25260 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G25250.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G64870.1); similar to IMP dehydrogenase/GMP reductase [Medicago truncatula] (GB:ABE86648.1); similar to 80C09_16 [Brassica rapa subsp. pekinensis] (GB:AAZ41827.1); similar to nodulin [Glycine max] (GB:AAC72337.1); contains domain FLOTILLIN-RELATED (PTHR13806); contains domain BAND 7-RELATED (PTHR13806:SF3)\\
## Solyc01g090870 & NA & NA\\
## \addlinespace
## Solyc01g094770 & NA & NA\\
## Solyc01g098790 & NA & NA\\
## Solyc01g102870 & AT1G55610 & mutant has Altered vascular cell differentiation; LRR Receptor Kinase\\
## Solyc01g104970 & AT4G33430 & Leu-rich receptor Serine/threonine protein kinase. Component of BR signaling that interacts with BRI1 in vitro and in vivo to form a heterodimer. Brassinolide-dependent association of BRI1 and BAK1 in vivo. Phosphorylation of both BRI1 and BAK1 on Thr residues was BR dependent. Although BAK1 and BRI1 alone localize in the plasma membrane, when BAK1 and BRI1 are coexpressed, the heterodimer BAK1/BRI1 they form is localized in the endosome.\\
## Solyc01g105220 & AT5G64210 & encodes an isoform of alternative oxidase, which is expressed in rosettes, stems, and roots. Transcript accumulates in dry seeds and decreased upon germination and is not affected by actinomycin A. Protein is localized to mitochondria.\\
## \addlinespace
## Solyc01g108170 & NA & NA\\
## Solyc01g108640 & NA & NA\\
## Solyc01g109710 & AT2G21620 & Encodes gene that is induced in response to dessication; mRNA expression is seen 10 and 24 hrs after start of dessication treatment.\\
## Solyc02g044020 & AT1G60230 & radical SAM domain-containing protein; similar to radical SAM domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G19630.1); similar to Os01g0640800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043681.1); similar to florfenicol resistance protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD68852.1); contains InterPro domain Radical SAM; (InterPro:IPR007197); contains InterPro domain Conserved hypothetical protein 48; (InterPro:IPR004383)\\
## Solyc02g062180 & NA & NA\\
## \addlinespace
## Solyc02g066810 & NA & NA\\
## Solyc02g069040 & NA & NA\\
## Solyc02g069240 & AT3G05320 & similar to protein-O-fucosyltransferase 1 [Saccharum officinarum] (GB:CAH40838.1)\\
## Solyc02g071640 & NA & NA\\
## Solyc02g078490 & NA & NA\\
## \addlinespace
## Solyc02g078600 & AT2G20780 & mannitol transporter, putative; Identical to Probable polyol transporter 4 (PLT4) [Arabidopsis Thaliana] (GB:Q0WUU6;GB:Q9SKT9); similar to ATPLT5 (POLYOL TRANSPORTER 5), D-ribose transporter/ D-xylose transporter/ carbohydrate transporter/ galactose transporter/ glucose transporter/ glycerol transporter/ hydrogen:sugar symporter/ mannitol transporter/ monosaccharide transporter/ myo-inositol transporter/ sorbitol transporter/ sugar porter [Arabidopsis thaliana] (TAIR:AT3G18830.1); similar to Os04g0678900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054276.1); similar to Os04g0529800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053383.1); similar to Sugar transporter superfamily; Major facilitator superfamily MFS_1 [Medicago truncatula] (GB:ABE84116.1); contains InterPro domain Sugar transporter; (InterPro:IPR003663); contains InterPro domain Sugar transporter superfamily; (InterPro:IPR005829); contains InterPro domain Major facilitator superfamily; (InterPro:IPR007114); contains InterPro domain General substrate transporter; (InterPro:IPR005828)\\
## Solyc02g078890 & NA & NA\\
## Solyc02g078960 & AT1G11200 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G21570.1); similar to unknown [Medicago sativa] (GB:AAZ32885.1); similar to Os07g0506000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059733.1); contains InterPro domain Protein of unknown function DUF300; (InterPro:IPR005178)\\
## Solyc02g084900 & AT2G18193 & AAA-type ATPase family protein; similar to AAA-type ATPase family protein [Arabidopsis thaliana] (TAIR:AT2G18190.1); similar to putative AAA-type ATPase [Oryza sativa (japonica cultivar-group)] (GB:AAT37998.1); contains InterPro domain AAA-protein subdomain; (InterPro:IPR003960); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc02g085940 & NA & NA\\
## \addlinespace
## Solyc02g088160 & NA & NA\\
## Solyc02g089090 & AT3G51550 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G39000.1); similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G28680.1); similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT3G04690.1); similar to Protein kinase [Medicago truncatula] (GB:ABE93789.1); similar to putative receptor-like protein kinase [Oryza sativa (japonica cultivar-group)] (GB:BAD81103.1); similar to receptor protein kinase-like protein [Capsicum annuum] (GB:AAL40864.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc02g093330 & NA & NA\\
## Solyc03g006590 & AT1G11120 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G61170.1); similar to CK25 [Nicotiana tabacum] (GB:ABE01833.1)\\
## Solyc03g007490 & NA & NA\\
## \addlinespace
## Solyc03g058480 & NA & NA\\
## Solyc03g098210 & AT3G17700 & cyclic nucleotide-binding transporter 1, member of a family of cyclic nucleotide gated channels.\\
## Solyc03g113720 & NA & NA\\
## Solyc03g114210 & AT5G50000 & protein kinase, putative; similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT3G01490.1); similar to flag-tagged protein kinase domain of putative mitogen-activated protein kinase kinase kinase [synthetic construct] (GB:ABK06451.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc03g117720 & NA & NA\\
## \addlinespace
## Solyc04g007080 & NA & NA\\
## Solyc04g014990 & NA & NA\\
## Solyc04g071280 & AT3G61360 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G02420.1); similar to Os06g0694600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058444.1); similar to IMP dehydrogenase/GMP reductase [Medicago truncatula] (GB:ABE78833.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc04g072860 & AT1G78060 & glycosyl hydrolase family 3 protein; similar to BXL1 (BETA-XYLOSIDASE 1), hydrolase, hydrolyzing O-glycosyl compounds [Arabidopsis thaliana] (TAIR:AT5G49360.1); similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT5G10560.1); similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT3G19620.1); similar to Glycosyl hydrolase family 3 C terminal domain, putative [Oryza sativa (japonica cultivar-group)] (GB:AAX96800.1); similar to beta-D-xylosidase [Oryza sativa (japonica cultivar-group)] (GB:AAX92971.1); similar to beta-D-xylosidase [Hordeum vulgare] (GB:AAK38482.1); contains InterPro domain Glycoside hydrolase, family 3, C-terminal; (InterPro:IPR002772); contains InterPro domain Glycoside hydrolase, family 3, N-terminal; (InterPro:IPR001764)\\
## Solyc04g077110 & NA & NA\\
## \addlinespace
## Solyc04g078270 & NA & NA\\
## Solyc04g079760 & NA & NA\\
## Solyc05g046310 & NA & NA\\
## Solyc05g051050 & AT4G00720 & shaggy-related protein kinase theta / ASK-theta (ASK8); Identical to Shaggy-related protein kinase theta (EC 2.7.11.1) (ASK-theta) (ASK8) [Arabidopsis Thaliana] (GB:Q96287;GB:P93731); similar to ATSK11 (Arabidopsis thaliana SHAGGY-related kinase 11), protein kinase [Arabidopsis thaliana] (TAIR:AT5G26751.1); similar to shaggy-related protein kinase beta / ASK-beta (ASK2) [Arabidopsis thaliana] (TAIR:AT3G61160.2); similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G14640.1); similar to Shaggy-related protein kinase theta (ASK-theta) (GB:O04160); similar to Ser/Thr protein kinase [Lotus japonicus] (GB:BAD95891.1); similar to NSK6; Shaggy-like kinase 6 [Nicotiana tabacum] (GB:CAA69899.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc05g052210 & NA & NA\\
## \addlinespace
## Solyc06g005630 & NA & NA\\
## Solyc06g042970 & NA & NA\\
## Solyc06g053210 & NA & NA\\
## Solyc06g062330 & NA & NA\\
## Solyc06g062490 & AT3G21310 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G51770.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:AAT77886.1); contains InterPro domain Protein of unknown function DUF266, plant; (InterPro:IPR004949)\\
## \addlinespace
## Solyc06g062900 & AT1G17440 & transcription initiation factor IID (TFIID) subunit A family protein; similar to TAFII58 (tata-associated factor II 58) [Arabidopsis thaliana] (TAIR:AT3G10070.1); similar to Histone-fold [Medicago truncatula] (GB:ABE92437.1); contains InterPro domain Histone-fold; (InterPro:IPR009072); contains InterPro domain Transcription initiation factor TFIID; (InterPro:IPR003228); contains InterPro domain Histone-fold/TFIID-TAF/NF-Y; (InterPro:IPR007124)\\
## Solyc06g071610 & AT5G50130 & short-chain dehydrogenase/reductase (SDR) family protein; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT4G24050.1); similar to Short-chain dehydrogenase/reductase SDR [Medicago truncatula] (GB:ABE79697.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc06g071780 & NA & NA\\
## Solyc06g072460 & NA & NA\\
## Solyc07g032470 & NA & NA\\
## \addlinespace
## Solyc07g041620 & NA & NA\\
## Solyc07g041900 & AT3G45310 & cysteine proteinase, putative; Identical to Thiol protease aleurain-like precursor (EC 3.4.22.16) [Arabidopsis Thaliana] (GB:Q8RWQ9;GB:Q9M3E7); similar to AALP (ARABIDOPSIS ALEURAIN-LIKE PROTEASE), cysteine-type peptidase [Arabidopsis thaliana] (TAIR:AT5G60360.1); similar to senescence-associated cysteine protease [Brassica oleracea] (GB:AAL60582.1); contains InterPro domain Peptidase, cysteine peptidase active site; (InterPro:IPR000169); contains InterPro domain Peptidase C1A, papain; (InterPro:IPR013128); contains InterPro domain Proteinase inhibitor I29, cathepsin propeptide; (InterPro:IPR013201); contains InterPro domain Peptidase C1A, papain C-terminal; (InterPro:IPR000668)\\
## Solyc07g049740 & AT2G04560 & glycotransferase family protein 19; similar to lipid-A-disaccharide synthase [Silicibacter sp. TM1040] (GB:YP_613397.1); similar to Os01g0752600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044267.1); contains InterPro domain Glycosyl transferase, family 19; (InterPro:IPR003835)\\
## Solyc07g052570 & AT3G21820 & SET domain-containing protein; Identical to Histone-lysine N-methyltransferase ATXR2 (EC 2.1.1.43) (Trithorax- related protein 2) (TRX-related protein 2) (Protein SET DOMAIN GROUP 36) (ATXR2) [Arabidopsis Thaliana] (GB:Q5PP37;GB:Q9LSY2); similar to SDG37 (SET DOMAIN GROUP 37), zinc ion binding [Arabidopsis thaliana] (TAIR:AT2G17900.1); similar to H0323C08.3 [Oryza sativa (indica cultivar-group)] (GB:CAJ86213.1); similar to Os04g0629100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053965.1); contains InterPro domain Nuclear protein SET; (InterPro:IPR001214); contains InterPro domain Zinc finger, MYND-type; (InterPro:IPR002893)\\
## Solyc07g053250 & NA & NA\\
## \addlinespace
## Solyc07g054620 & NA & NA\\
## Solyc08g016420 & AT1G29990 & prefoldin, putative; similar to prefoldin-like [Oryza sativa (japonica cultivar-group)] (GB:BAD19943.1); contains InterPro domain Prefoldin; (InterPro:IPR009053); contains InterPro domain Prefoldin beta-like; (InterPro:IPR002777)\\
## Solyc08g023520 & NA & NA\\
## Solyc08g036560 & NA & NA\\
## Solyc08g069200 & NA & NA\\
## \addlinespace
## Solyc09g005440 & NA & NA\\
## Solyc09g031790 & NA & NA\\
## Solyc09g056290 & NA & NA\\
## Solyc09g064310 & AT5G43920 & transducin family protein / WD-40 repeat family protein; similar to transducin family protein / WD-40 repeat family protein [Arabidopsis thaliana] (TAIR:AT5G08560.2); similar to Os10g0465000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064796.1); similar to PREDICTED: similar to WD-repeat protein 26 [Danio rerio] (GB:XP_693216.1); similar to Os02g0294600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046605.1); contains InterPro domain CTLH, C-terminal to LisH motif; (InterPro:IPR006595); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046); contains InterPro domain Lissencephaly type-1-like homology motif; (InterPro:IPR006594)\\
## Solyc09g072580 & NA & NA\\
## \addlinespace
## Solyc09g090990 & NA & NA\\
## Solyc09g091060 & NA & NA\\
## Solyc09g097820 & AT4G18465 & RNA helicase, putative; similar to EMB2733/ESP3 (EMBRYO DEFECTIVE 2733), ATP-dependent RNA helicase [Arabidopsis thaliana] (TAIR:AT1G32490.1); similar to PREDICTED: DEAH (Asp-Glu-Ala-His) box polypeptide 35 isoform 4 [Pan troglodytes] (GB:XP_514647.2); similar to PREDICTED: similar to Probable ATP-dependent helicase DHX35 (DEAH-box protein 35) [Canis familiaris] (GB:XP_542996.2); similar to DEAH (Asp-Glu-Ala-His) box polypeptide 35 [Homo sapiens] (GB:NP_068750.2); contains InterPro domain ATP-dependent helicase, DEAH-box; (InterPro:IPR002464); contains InterPro domain Helicase-associated region; (InterPro:IPR007502); contains InterPro domain DEAD/DEAH box helicase; (InterPro:IPR001410); contains InterPro domain Protein of unknown function DUF1605; (InterPro:IPR011709); contains InterPro domain DEAD/DEAH box helicase, N-terminal; (InterPro:IPR011545); contains InterPro domain Helicase, C-terminal; (InterPro:IPR001650)\\
## Solyc10g009610 & AT2G46370 & An auxin-induced gene encoding a cytoplasmic localized phytochrome A signaling component protein similar to the GH3 family of proteins Loss of function mutants are defective in a variety of responses to jasmonic acid.\\
## Solyc10g044640 & AT1G71900 & similar to permease-related [Arabidopsis thaliana] (TAIR:AT1G34470.1); similar to Os01g0882300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045007.1); similar to Non-imprinted in Prader-Willi/Angelman syndrome re (GB:ABA91886.2); similar to Os05g0424800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055595.1); contains InterPro domain Protein of unknown function DUF803; (InterPro:IPR008521)\\
## \addlinespace
## Solyc10g049820 & NA & NA\\
## Solyc11g020760 & AT1G35530 & DEAD/DEAH box helicase, putative; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G36020.1); similar to Os11g0180600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065894.1); similar to Similar to probable ATP-dependent RNA helicase - fission yeast (Schizosaccharomyces pombe) [Oryza sativa (japonica cultivar-group)] (GB:AAX96303.1); contains InterPro domain DEAD/DEAH box helicase; (InterPro:IPR001410); contains InterPro domain DEAD/DEAH box helicase, N-terminal; (InterPro:IPR011545); contains InterPro domain Helicase, C-terminal; (InterPro:IPR001650)\\
## Solyc11g066310 & NA & NA\\
## Solyc11g069230 & AT3G09740 & syntaxin of plants 71 (SYP71)\\
## Solyc12g005260 & NA & NA\\
## \addlinespace
## Solyc12g006240 & NA & NA\\
## Solyc12g011200 & NA & NA\\
## Solyc12g011370 & AT1G17120 & Arabidopsis thaliana amino acid permease family protein (At1g17120)\\
## Solyc12g019400 & NA & NA\\
## Solyc12g036300 & NA & NA\\
## \addlinespace
## Solyc12g044380 & AT1G66590 & cox19 family protein; similar to cox19 family protein [Arabidopsis thaliana] (TAIR:AT1G69750.1); similar to Os02g0313500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046657.1); similar to 2-oxo acid dehydrogenase, lipoyl-binding site; CHCH [Medicago truncatula] (GB:ABE85559.1); contains InterPro domain CHCH; (InterPro:IPR010625)\\
## Solyc12g095850 & AT2G25840 & OVA4 (OVULE ABORTION 4); ATP binding / aminoacyl-tRNA ligase; similar to putative tryptophanyl-tRNA synthetase [Oryza sativa (japonica cultivar-group)] (GB:BAD87908.1); contains InterPro domain Aminoacyl-tRNA synthetase, class I; (InterPro:IPR001412); contains InterPro domain Tryptophanyl-tRNA synthetase, class Ib; (InterPro:IPR002306); contains InterPro domain Aminoacyl-tRNA synthetase, class Ib; (InterPro:IPR002305)\\
## \bottomrule
## \end{tabular}Cluster 16
clusterVis(16)## Using gene as id variables
clusterVis_PCA(16)
clusterVis_line(16)## Using gene, curated as id variables
#clusterGO(16)
y <- genesInClust(16, data.val2, annotation) ## [1] 94kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g209460 & AT4G10950 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT5G08460.1); similar to putative GDSL-lipase [Oryza sativa (japonica cultivar-group)] (GB:BAD21752.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc01g005070 & NA & NA\\
## Solyc01g010180 & NA & NA\\
## Solyc01g066020 & NA & NA\\
## Solyc01g081210 & NA & NA\\
## \addlinespace
## Solyc01g088410 & NA & NA\\
## Solyc01g088430 & AT1G02205 & Expression of the CER1 gene associated with production of stem epicuticular wax and pollen fertility. Biochemical studies showed that cer1 mutants are blocked in the conversion of stem wax C30 aldehydes to C29 alkanes, and they also lack the secondary alcohols and ketones. These suggested the CER1 protein is a aldehyde decarbonylase.\\
## Solyc01g094090 & AT5G65940 & hydrolyzes beta-hydroxyisobutyryl-CoA\\
## Solyc01g097790 & AT5G28150 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G04860.1); similar to Os07g0572300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060057.1); similar to Os03g0806700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051637.1); similar to Protein of unknown function DUF868, plant [Medicago truncatula] (GB:ABE92686.1); contains InterPro domain Protein of unknown function DUF868, plant; (InterPro:IPR008586)\\
## Solyc01g102710 & AT5G49760 & leucine-rich repeat family protein / protein kinase family protein; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT5G49780.1); similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT1G79620.1); similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT5G49770.1); similar to Protein kinase [Medicago truncatula] (GB:ABE93732.1); similar to Protein kinase domain containing protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF95747.1); similar to putative receptor-like protein kinase 2 [Oryza sativa (japonica cultivar-group)] (GB:BAD82283.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## \addlinespace
## Solyc01g103150 & AT1G10280 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G21310.1); similar to Protein of unknown function DUF266, plant [Medicago truncatula] (GB:ABE91847.1); contains InterPro domain Protein of unknown function DUF266, plant; (InterPro:IPR004949)\\
## Solyc01g103970 & NA & NA\\
## Solyc01g109310 & NA & NA\\
## Solyc01g110690 & NA & NA\\
## Solyc01g111890 & AT2G17020 & F-box family protein (FBL10); similar to F-box family protein [Arabidopsis thaliana] (TAIR:AT1G55590.1); similar to Cyclin-like F-box [Medicago truncatula] (GB:ABE89445.1); contains InterPro domain Cyclin-like F-box; (InterPro:IPR001810); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, cysteine-containing; (InterPro:IPR007089)\\
## \addlinespace
## Solyc02g062300 & NA & NA\\
## Solyc02g065060 & AT3G50560 & short-chain dehydrogenase/reductase (SDR) family protein; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT3G06060.1); similar to Os08g0476300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062040.1); similar to short-chain dehydrogenase/reductase SDR [Rubrobacter xylanophilus DSM 9941] (GB:YP_645735.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc02g067620 & NA & NA\\
## Solyc02g071190 & AT5G46390 & peptidase S41 family protein; similar to peptidase S41 family protein [Arabidopsis thaliana] (TAIR:AT3G57680.1); similar to D1 protease-like protein precursor [Nicotiana plumba (GB:AAL99045.1); contains InterPro domain PDZ/DHR/GLGF; (InterPro:IPR001478); contains InterPro domain Peptidase S41; (InterPro:IPR005151); contains InterPro domain Peptidase S41A, C-terminal protease; (InterPro:IPR004447)\\
## Solyc02g078700 & AT1G61150 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G09300.1); similar to pg4 [Hordeum vulgare] (GB:AAV65331.1); contains InterPro domain CTLH, C-terminal to LisH motif; (InterPro:IPR006595); contains InterPro domain CT11-RanBPM; (InterPro:IPR013144)\\
## \addlinespace
## Solyc02g080070 & NA & NA\\
## Solyc02g083170 & NA & NA\\
## Solyc02g083380 & NA & NA\\
## Solyc02g090330 & AT5G66930 & similar to Os12g0446700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066715.1); similar to hypothetical protein DDBDRAFT_0187874 [Dictyostelium discoideum AX4] (GB:XP_636793.1); contains InterPro domain Protein of unknown function DUF1649; (InterPro:IPR012445)\\
## Solyc02g092110 & NA & NA\\
## \addlinespace
## Solyc02g092150 & AT5G65890 & Member of ACT domain containing protein family. ACT domains are amino acid binding domains. Shows strongest expression in flowers and siliques.\\
## Solyc03g006640 & NA & NA\\
## Solyc03g117370 & AT1G15750 & Encodes a protein with several WD40 repeats at the C-terminus and predicted protein-protein interaction domains at the N-terminus. Together with the TOPLESS-RELATED PROTEINS (TPRs), it is thought to be involved in transcriptional repression of root-promoting genes in the top help of the embryo during the transition stage of embryogenesis.\\
## Solyc03g117490 & AT1G80460 & Encodes a protein similar to glycerol kinase, which converts glycerol to glycerol 3-phosphate and performs a rate-limiting step in glycerol metabolism. This gene is required for both general and specific resistance against bacteria and fungi. Arabidopsis thaliana glycerol kinase (GLR1) mRNA.Involved in flagellin-induced non-host resistance to Pseudomonas. Coronatine partially suppresses flagellin-induced expression of NHO1.\\
## Solyc04g015460 & NA & NA\\
## \addlinespace
## Solyc04g016010 & AT2G41680 & thioredoxin reductase, putative / NADPH-dependent thioredoxin reductase, putative; similar to NTRA (NADPH-dependent thioredoxin reductase 2) [Arabidopsis thaliana] (TAIR:AT2G17420.1); similar to Os07g0657900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060515.1); similar to thioredoxin reductase [Nostoc sp. PCC 7120] (GB:NP_484780.1); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Pyridine nucleotide-disulphide oxidoreductase, NAD-binding region; (InterPro:IPR001327); contains InterPro domain Adrenodoxin reductase; (InterPro:IPR000759); contains InterPro domain Thioredoxin-related; (InterPro:IPR006662); contains InterPro domain Thioredoxin domain 2; (InterPro:IPR006663); contains InterPro domain Glutaredoxin; (InterPro:IPR002109); contains InterPro domain Thioredoxin reductase; (InterPro:IPR005982); contains InterPro domain Thioredoxin fold; (InterPro:IPR012335); contains InterPro domain Pyridine nucleotide-disulphide oxidoreductase, class-II; (InterPro:IPR000103); contains InterPro domain FAD-dependent pyridine nucleotide-disulphide oxidoreductase; (InterPro:IPR013027)\\
## Solyc04g025150 & NA & NA\\
## Solyc04g079640 & AT4G31940 & member of CYP82C\\
## Solyc05g008790 & AT5G51290 & ceramide kinase-related; similar to diacylglycerol kinase [Arabidopsis thaliana] (TAIR:AT4G21540.2); similar to Os02g0656200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047623.1); similar to putative ceramide kinase [Oryza sativa (japonica cultivar-group)] (GB:BAD25337.1); contains InterPro domain Diacylglycerol kinase, catalytic region; (InterPro:IPR001206)\\
## Solyc05g012560 & AT1G69330 & zinc finger (C3HC4-type RING finger) family protein; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G29270.2); similar to Os03g0211100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049345.1); similar to Os03g0427100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050412.1); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## \addlinespace
## Solyc05g015510 & NA & NA\\
## Solyc05g021530 & NA & NA\\
## Solyc05g052470 & AT3G11050 & ATFER2 (FERRITIN 2); ferric iron binding; Identical to Ferritin-2, chloroplast precursor (EC 1.16.3.1) (FER2) [Arabidopsis Thaliana] (GB:Q9SRL5;GB:Q42288;GB:Q8L9N6;GB:Q8WHW4); similar to ATFER4 (FERRITIN 4), ferric iron binding [Arabidopsis thaliana] (TAIR:AT2G40300.1); similar to ferritin [Conyza canadensis] (GB:CAH05075.1); contains InterPro domain Ferritin-related; (InterPro:IPR012347); contains InterPro domain Ferritin; (InterPro:IPR001519); contains InterPro domain Ferritin/ribonucleotide reductase-like; (InterPro:IPR009078); contains InterPro domain Ferritin-like; (InterPro:IPR009040); contains InterPro domain Ferritin and Dps; (InterPro:IPR008331)\\
## Solyc05g052830 & AT3G55740 & Encodes a proline transporter with affinity for gly betaine, proline, and GABA. Protein is expressed most highly in the roots.\\
## Solyc05g052920 & AT5G05980 & ATDFB (A. THALIANA DHFS-FPGS HOMOLOG B); tetrahydrofolylpolyglutamate synthase; similar to ATDFD (A. THALIANA DHFS-FPGS HOMOLOG D), tetrahydrofolylpolyglutamate synthase [Arabidopsis thaliana] (TAIR:AT3G55630.3); similar to putative folylpolyglutamate synthetase [Oryza sativa (japonica cultivar-group)] (GB:AAG13624.1); similar to Os03g0111100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048721.1); contains InterPro domain Folylpolyglutamate synthetase; (InterPro:IPR001645); contains InterPro domain Mur ligase, middle region; (InterPro:IPR013221)\\
## \addlinespace
## Solyc05g055420 & AT5G04500 & a member of the Glycosyltransferase Family 64 (according to CAZy Database)\\
## Solyc06g054430 & NA & NA\\
## Solyc06g065790 & NA & NA\\
## Solyc06g068550 & AT1G79720 & aspartyl protease family protein; similar to chloroplast nucleoid DNA-binding protein, putative [Arabidopsis thaliana] (TAIR:AT5G10770.1); similar to Os09g0423500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063212.1); similar to 41 kD chloroplast nucleoid DNA binding protein (CND41) [Nicotiana sylvestris] (GB:BAC22609.1); similar to Os08g0267300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061407.1); contains InterPro domain Peptidase A1, pepsin; (InterPro:IPR001461); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007)\\
## Solyc06g071600 & NA & NA\\
## \addlinespace
## Solyc06g073520 & AT3G59310 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G59340.1); similar to Os05g0299500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055130.1); similar to Os08g0540000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062380.1); similar to anthocyanin-related membrane protein 1 (Anm1)-like [Oryza sativa (japonica cultivar-group)] (GB:BAD34418.1); contains InterPro domain Protein of unknown function DUF914, eukaryotic; (InterPro:IPR009262)\\
## Solyc06g076870 & AT2G40010 & 60S acidic ribosomal protein P0 (RPP0A); Identical to 60S acidic ribosomal protein P0-1 (RPP0A) [Arabidopsis Thaliana] (GB:O04204); similar to 60S acidic ribosomal protein P0 (RPP0B) [Arabidopsis thaliana] (TAIR:AT3G09200.1); similar to Ribosomal protein L10; Ribosomal protein 60S [Medicago truncatula] (GB:ABE83633.1); contains InterPro domain Ribosomal protein L10; (InterPro:IPR001790); contains InterPro domain Ribosomal protein 60S; (InterPro:IPR001813)\\
## Solyc07g006920 & NA & NA\\
## Solyc07g008260 & AT5G25360 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G15350.1); similar to hypothetical protein [Glycine max] (GB:AAN03467.1)\\
## Solyc07g017520 & AT1G73430 & sec34-like family protein; similar to Subunit of cis-Gol (GB:CAL52453.1); similar to Os08g0451000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061944.1); contains InterPro domain Sec34-like protein; (InterPro:IPR007265)\\
## \addlinespace
## Solyc07g042550 & AT3G43190 & Encodes a protein with sucrose synthase activity (SUS4).\\
## Solyc07g049440 & AT2G04570 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT2G42990.1); similar to GDSL-motif lipase/hydrolase-like [Oryza sativa (japonica cultivar-group)] (GB:BAD22300.1); similar to Os06g0636700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058145.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc07g052670 & AT5G54680 & ILR3 (IAA-LEUCINE RESISTANT3); DNA binding / transcription factor; similar to basic helix-loop-helix (bHLH) family protein [Arabidopsis thaliana] (TAIR:AT1G51070.1); similar to Prefoldin; Helix-loop-helix DNA-binding [Medicago truncatula] (GB:ABE93168.1); contains InterPro domain Helix-loop-helix DNA-binding; (InterPro:IPR011598); contains InterPro domain Basic helix-loop-helix dimerisation region bHLH; (InterPro:IPR001092)\\
## Solyc07g053720 & AT5G36160 & aminotransferase-related; similar to aminotransferase, putative [Arabidopsis thaliana] (TAIR:AT5G53970.1); similar to Os02g0302700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046628.1); similar to Os02g0302400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046626.1); similar to putative nicotianamine aminotransferase A [Oryza sativa (japonica cultivar-group)] (GB:BAD23582.1); contains InterPro domain 1-aminocyclopropane-1-carboxylate synthase; (InterPro:IPR001176); contains InterPro domain Tyrosine/nicotianamine aminotransferase; (InterPro:IPR005958); contains InterPro domain Aminotransferase, class I and II; (InterPro:IPR004839)\\
## Solyc07g062170 & NA & NA\\
## \addlinespace
## Solyc07g062270 & AT1G78680 & The Arabidopsis protein AtGGH2 is a gamma-glutamyl hydrolase acting specifically on monoglutamates. The enzyme is involved in the tetrahydrofolate metabolism and located to the vacuole.\\
## Solyc07g062810 & AT5G57850 & aminotransferase class IV family protein; Identical to Branched-chain-amino-acid aminotransferase-like protein 3, chloroplast precursor [Arabidopsis Thaliana] (GB:Q8L493;GB:Q9FJM9); similar to aminotransferase class IV family protein [Arabidopsis thaliana] (TAIR:AT3G05190.1); similar to 4-amino-4-deoxychorismate lyase [Lycopersicon esculentum] (GB:AAT74744.1); contains InterPro domain Aminotransferase, class IV; (InterPro:IPR001544)\\
## Solyc08g013840 & AT2G38740 & haloacid dehalogenase-like hydrolase family protein; similar to haloacid dehalogenase-like hydrolase family protein [Arabidopsis thaliana] (TAIR:AT1G56500.1); similar to Os09g0407700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063137.1); similar to beta-phosphoglucomutase-like protein [Oryza sativa (japonica cultivar-group)] (GB:BAD36245.1); contains InterPro domain HAD-superfamily hydrolase subfamily IA, variant 3; (InterPro:IPR006402); contains InterPro domain Haloacid dehalogenase-like hydrolase; (InterPro:IPR005834); contains InterPro domain Haloacid dehalogenase/epoxide hydrolase; (InterPro:IPR005833)\\
## Solyc08g015640 & NA & NA\\
## Solyc08g063090 & AT2G46210 & delta-8 sphingolipid desaturase, putative; similar to delta-8 sphingolipid desaturase (SLD1) [Arabidopsis thaliana] (TAIR:AT3G61580.1); similar to Fatty acid desaturase, putative [Medicago truncatula] (GB:ABE90798.1); similar to delta-8 sphingolipid desaturase [Brassica napus] (GB:CAA11857.1); similar to delta-8 sphingolipid desaturase [Helianthus annuus] (GB:CAA60621.1); contains InterPro domain Fatty acid desaturase/sphingolipid desaturase; (InterPro:IPR012171); contains InterPro domain Fatty acid desaturase; (InterPro:IPR005804); contains InterPro domain Cytochrome b5; (InterPro:IPR001199); contains InterPro domain Fatty acid desaturase subdomain; (InterPro:IPR010257)\\
## \addlinespace
## Solyc08g066310 & NA & NA\\
## Solyc08g067960 & AT5G25560 & zinc finger (C3HC4-type RING finger) family protein; similar to zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] (TAIR:AT5G22920.1); similar to Zinc finger, RING-type; Zinc finger, CHY-type [Medicago truncatula] (GB:ABE83637.1); contains InterPro domain Zinc finger, FYVE/PHD-type; (InterPro:IPR011011); contains InterPro domain Zinc finger, CHY-type; (InterPro:IPR008913); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc08g075150 & NA & NA\\
## Solyc08g075430 & AT1G31770 & ABC transporter family protein; Identical to White-brown complex homolog protein 14 (WBC14) [Arabidopsis Thaliana] (GB:Q9C6W5;GB:Q9C6R7); similar to ABC transporter family protein [Arabidopsis thaliana] (TAIR:AT4G27420.1); similar to ABC transporter-like protein [Brassica rapa] (GB:ABB97034.1); similar to Os08g0167000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061077.1); contains InterPro domain ABC-2 type transporter; (InterPro:IPR013525); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain ABC transporter related; (InterPro:IPR003439)\\
## Solyc08g077340 & NA & NA\\
## \addlinespace
## Solyc08g079310 & AT4G12320 & member of CYP706A\\
## Solyc09g005850 & AT3G55140 & pectate lyase family protein; similar to pectate lyase family protein [Arabidopsis thaliana] (TAIR:AT3G09540.1); similar to Os01g0546800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043284.1); similar to putative pectate lyase [Oryza sativa (japonica cultivar-group)] (GB:BAD73403.1); contains InterPro domain Virulence factor, pectin lyase fold; (InterPro:IPR011050); contains InterPro domain Pectate lyase/Amb allergen; (InterPro:IPR002022)\\
## Solyc09g007570 & NA & NA\\
## Solyc09g008460 & AT5G03530 & ATRAB ALPHA (Arabidopsis Rab GTPase homolog C2a); GTP binding; similar to AtRABC2b/AtRab18C (Arabidopsis Rab GTPase homolog C2b), GTP binding [Arabidopsis thaliana] (TAIR:AT3G09910.1); similar to RAB1X [Lotus japonicus] (GB:CAA98163.1); contains InterPro domain Small GTP-binding protein domain; (InterPro:IPR005225); contains InterPro domain Ras small GTPase, Rab type; (InterPro:IPR003579); contains InterPro domain Sigma-54 factor, interaction region; (InterPro:IPR002078); contains InterPro domain Ras GTPase; (InterPro:IPR001806); contains InterPro domain Ras; (InterPro:IPR013753)\\
## Solyc09g009000 & NA & NA\\
## \addlinespace
## Solyc09g010230 & NA & NA\\
## Solyc09g047930 & AT3G07510 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G01580.1); similar to Os07g0240400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059264.1); similar to Os10g0178200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064246.1); similar to H0201G08.7 [Oryza sativa (indica cultivar-group)] (GB:CAH67780.1)\\
## Solyc09g064470 & AT2G20370 & Encodes a xyloglucan galactosyltransferase located in the membrane of Golgi stacks that is involved in the biosynthesis of fucose. It is also involved in endomembrane organization. It is suggested that it is a dual-function protein that is responsible for actin organization and the synthesis of cell wall materials.\\
## Solyc09g075040 & AT1G02860 & SPX (SYG1/Pho81/XPR1) domain-containing protein / zinc finger (C3HC4-type RING finger) protein-related; similar to SPX (SYG1/Pho81/XPR1) domain-containing protein / zinc finger (C3HC4-type RING finger) protein-related [Arabidopsis thaliana] (TAIR:AT2G38920.1); similar to Zinc finger, RING-type; SPX, N-terminal [Medicago truncatula] (GB:ABE85047.1); contains InterPro domain SPX, N-terminal; (InterPro:IPR004331); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc09g090980 & NA & NA\\
## \addlinespace
## Solyc09g092330 & AT3G23820 & UDP-D-glucuronate 4-epimerase\\
## Solyc10g011850 & NA & NA\\
## Solyc10g050110 & AT3G19320 & leucine-rich repeat family protein; similar to leucine-rich repeat family protein [Arabidopsis thaliana] (TAIR:AT1G49750.1); similar to Leucine-rich repeat, plant specific [Medicago truncatula] (GB:ABD32635.1); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090)\\
## Solyc10g050440 & NA & NA\\
## Solyc10g054460 & AT1G26380 & FAD-binding domain-containing protein; similar to FAD-binding domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G26410.1); similar to FAD-binding domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G26420.1); similar to FAD-binding domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G26390.1); similar to FAD linked oxidase, N-terminal [Medicago truncatula] (GB:ABD32603.1); contains InterPro domain FAD linked oxidase, N-terminal; (InterPro:IPR006094); contains InterPro domain Berberine/berberine-like; (InterPro:IPR012951)\\
## \addlinespace
## Solyc10g055650 & AT3G51370 & protein phosphatase 2C, putative / PP2C, putative; similar to protein phosphatase 2C family protein / PP2C family protein [Arabidopsis thaliana] (TAIR:AT5G66080.1); similar to protein phosphatase 2c-like protein [Thellun (GB:AAM19705.1); contains InterPro domain Protein phosphatase 2C-like; (InterPro:IPR001932)\\
## Solyc10g076550 & NA & NA\\
## Solyc10g080610 & NA & NA\\
## Solyc10g081040 & NA & NA\\
## Solyc11g008530 & AT3G03300 & Encodes a Dicer-like protein that functions in the antiviral silencing response in turnip-crinkle virus-infected plants but not in TMV or CMV-strain-Y-infected plants. Involved in the production of ta-siRNAs. Partially antagonizes the production of miRNAs by DCL1. Substitutes for DCL4 to produce viral siRNA when DCL4 is missing or inhibited. Able to produce siRNAs but not miRNAs.\\
## \addlinespace
## Solyc11g013390 & NA & NA\\
## Solyc11g032090 & AT2G47010 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G17030.1); similar to hypothetical protein MtrDRAFT_AC136840g22v1 [Medicago truncatula] (GB:ABE82418.1)\\
## Solyc11g032190 & NA & NA\\
## Solyc11g040040 & NA & NA\\
## Solyc11g045380 & AT5G06580 & Encodes a protein with glycolate dehydrogenase activity, which was shown to complement various subunits of the E. coli glycolate oxidase complex. It has not been ruled out that the enzyme might be involved in other catalytic activities in vivo.\\
## \addlinespace
## Solyc11g064880 & AT5G19390 & pleckstrin homology (PH) domain-containing protein / RhoGAP domain-containing protein; similar to pleckstrin homology (PH) domain-containing protein / RhoGAP domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G12150.1); similar to pleckstrin homology (PH) domain-containing protein-related / RhoGAP domain-containing protein [Arabidopsis thaliana] (TAIR:AT4G24580.1); similar to pleckstrin homology (PH) domain-containing protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD73663.1); similar to pleckstrin homology (PH) domain-containing protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD30338.1); similar to pleckstriny domain-containing protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF96033.1); contains InterPro domain Pleckstrin-like; (InterPro:IPR001849); contains InterPro domain Pleckstrin homology-type; (InterPro:IPR011993); contains InterPro domain Rho GTPase activation protein; (InterPro:IPR008936); contains InterPro domain RhoGAP; (InterPro:IPR000198)\\
## Solyc12g005700 & AT2G32280 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G21310.1); similar to Os07g0545100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059913.1); similar to Os05g0435100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055641.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAT47054.1); contains InterPro domain Protein of unknown function DUF1218; (InterPro:IPR009606)\\
## Solyc12g009080 & AT2G06010 & encodes a novel protein whose expression level is induced in lines overexpressing salicylic-acid (SA)-inducible Arabidopsis DNA binding with one finger (Dof) transcription factor, called OBF-binding protein 3.\\
## Solyc12g042890 & AT3G15650 & phospholipase/carboxylesterase family protein; similar to phospholipase/carboxylesterase family protein [Arabidopsis thaliana] (TAIR:AT1G52700.1); similar to putative lysophospholipase 2 [Oryza sativa (japonica cultivar-group)] (GB:BAB62566.1); contains InterPro domain Phospholipase/Carboxylesterase; (InterPro:IPR003140)\\
## \bottomrule
## \end{tabular}Cluster 17
Solyc12g006340 & AT1G30330 & Encodes a member of the auxin response factor family. Mediates auxin response via expression of auxin regulated genes. Acts redundantly with ARF8 to control stamen elongation and flower maturation. Expression of ARF6 is controlled by miR167.\ Solyc12g006350 & AT1G30330 & Encodes a member of the auxin response factor family. Mediates auxin response via expression of auxin regulated genes. Acts redundantly with ARF8 to control stamen elongation and flower maturation. Expression of ARF6 is controlled by miR167.\
lyc11g061760 & AT5G13070 & MSF1-like family protein; similar to hypothetical protein DDBDRAFT_0188914 [Dictyostelium discoideum AX4] (GB:XP_635610.1); similar to Os02g0717900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047936.1); contains InterPro domain Iron dependent repressor; (InterPro:IPR001367); contains InterPro domain MSF1; (InterPro:IPR006797)\
Solyc12g006340 & AT1G30330 & Encodes a member of the auxin response factor family. Mediates auxin response via expression of auxin regulated genes. Acts redundantly with ARF8 to control stamen elongation and flower maturation. Expression of ARF6 is controlled by miR167.\
Solyc05g015730 & AT5G10140 & MADS-box protein encoded by FLOWERING LOCUS C - transcription factor that functions as a repressor of floral transition
Solyc04g007000 & AT1G13260 & Encodes an AP2/B3 domain transcription factor which is upregulated in response to low temperature. It contains a B3 DNA binding domain. It has circadian regulation and may function as a negative growth regulator.\
Solyc01g058030 & AT1G47990 & Encodes a gibberellin 2-oxidase. AtGA2OX4 expression is responsive to cytokinin and KNOX activities.\ Solyc01g058040 & AT1G02400 & Encodes a gibberellin 2-oxidase.\
Solyc01g010970 & AT1G69440 & Encodes ARGONAUTE7, a member of the ARGONAUTE family, characterised by the presence of PAZ and PIWI domains. Involved in the regulation of developmental timing. Required for the accumulation of TAS3 ta-siRNAs but not for accumulation of miR171, miR173, miR390 or mi391. Localized in mature rosette leaves and floral buds.\
clusterVis(17)## Using gene as id variables
clusterVis_PCA(17)
clusterVis_line(17)## Using gene, curated as id variables
#clusterGO(17)
y <- genesInClust(17, data.val2, annotation) ## [1] 91kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc01g008530 & AT1G51410 & similar to Eucalyptus gunnii alcohol dehydrogenase of unknown physiological function (GI:1143445), apple tree, PIR:T16995; NOT a cinnamyl-alcohol dehydrogenase\\
## Solyc01g010510 & AT1G26900 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G22410.1); similar to Pancreatic ribonuclease; Tetratricopeptide-like helical [Medicago truncatula] (GB:ABE87347.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc01g010970 & AT1G69440 & Encodes ARGONAUTE7, a member of the ARGONAUTE family, characterised by the presence of PAZ and PIWI domains. Involved in the regulation of developmental timing. Required for the accumulation of TAS3 ta-siRNAs but not for accumulation of miR171, miR173, miR390 or mi391. Localized in mature rosette leaves and floral buds.\\
## Solyc01g020160 & NA & NA\\
## Solyc01g056790 & NA & NA\\
## \addlinespace
## Solyc01g058030 & AT1G47990 & Encodes a gibberellin 2-oxidase. AtGA2OX4 expression is responsive to cytokinin and KNOX activities.\\
## Solyc01g058040 & AT1G02400 & Encodes a gibberellin 2-oxidase.\\
## Solyc01g066440 & AT3G06840 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G49170.1)\\
## Solyc01g079700 & NA & NA\\
## Solyc01g094360 & AT3G61250 & Member of the R2R3 factor gene family.\\
## \addlinespace
## Solyc01g106340 & AT5G64440 & AtFAAH (fatty acid amide hydrolase) modulates endogenous NAEs (N-Acylethanolamines) levels in plants by hydrolyzing NAEs to ethanolamine and their corresponding free fatty acids. NAE depletion likely participates in the regulation of plant growth.\\
## Solyc02g032490 & NA & NA\\
## Solyc02g032890 & NA & NA\\
## Solyc02g065500 & NA & NA\\
## Solyc02g067900 & NA & NA\\
## \addlinespace
## Solyc02g070230 & NA & NA\\
## Solyc02g082590 & NA & NA\\
## Solyc02g083430 & AT4G35870 & similar to early-responsive to dehydration protein-related / ERD protein-related [Arabidopsis thaliana] (TAIR:AT3G21620.1); similar to Os03g0137400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048901.1); similar to unknown [Sorghum bicolor] (GB:ABE77195.1); contains InterPro domain Protein of unknown function DUF221; (InterPro:IPR003864)\\
## Solyc02g085090 & AT2G18260 & member of SYP11 Gene Family\\
## Solyc02g087940 & NA & NA\\
## \addlinespace
## Solyc03g025120 & NA & NA\\
## Solyc03g025690 & NA & NA\\
## Solyc03g058490 & NA & NA\\
## Solyc03g063200 & NA & NA\\
## Solyc03g093150 & NA & NA\\
## \addlinespace
## Solyc03g093630 & NA & NA\\
## Solyc03g094060 & NA & NA\\
## Solyc03g098580 & NA & NA\\
## Solyc03g111650 & AT5G50280 & EMB1006 (EMBRYO DEFECTIVE 1006); binding; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G02860.1); similar to Putative indole-3-acetate beta-glucosyltransferase [Oryza sativa (japonica cultivar-group)] (GB:AAM15782.1); similar to Os05g0294600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055108.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc03g118770 & NA & NA\\
## \addlinespace
## Solyc03g123430 & NA & NA\\
## Solyc04g007000 & AT1G13260 & Encodes an AP2/B3 domain transcription factor which is upregulated in response to low temperature. It contains a B3 DNA binding domain. It has circadian regulation and may function as a negative growth regulator.\\
## Solyc04g025880 & AT1G70300 & potassium transporter\\
## Solyc04g063340 & NA & NA\\
## Solyc04g072800 & AT1G22170 & phosphoglycerate/bisphosphoglycerate mutase family protein; similar to phosphoglycerate/bisphosphoglycerate mutase family protein [Arabidopsis thaliana] (TAIR:AT1G78050.1); similar to Os02g0751800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048137.1); similar to putative phosphoglycerate mutase [Oryza sativa (japonica cultivar-group)] (GB:BAD38179.1); contains InterPro domain Phosphoglycerate/bisphosphoglycerate mutase; (InterPro:IPR001345); contains InterPro domain Phosphoglycerate mutase; (InterPro:IPR013078); contains InterPro domain Phosphoglycerate mutase 1; (InterPro:IPR005952)\\
## \addlinespace
## Solyc04g076440 & NA & NA\\
## Solyc05g005610 & AT5G40270 & metal-dependent phosphohydrolase HD domain-containing protein; similar to metal-dependent phosphohydrolase HD domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G40290.1); similar to Os01g0109300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001041793.1); similar to Metal-dependent phosphohydrolase (ISS) [Ostreococcus tauri] (GB:CAL49984.1); contains InterPro domain Metal-dependent phosphohydrolase, HD region; (InterPro:IPR003607); contains InterPro domain Metal-dependent phosphohydrolase, HD subdomain; (InterPro:IPR006674)\\
## Solyc05g007230 & AT4G20140 & leucine-rich repeat transmembrane protein kinase, putative; similar to EDA23 (embryo sac development arrest 23), ATP binding / protein serine/threonine kinase [Arabidopsis thaliana] (TAIR:AT5G44700.1); similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT2G33170.1); similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT5G63930.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAU44328.1); similar to Leucine Rich Repeat family protein [Solanum demissum] (GB:AAT40539.2); similar to putative LRR receptor-like kinase [Oryza sativa (japonica cultivar-group)] (GB:BAC84715.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, typical subtype; (InterPro:IPR003591); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc05g008620 & NA & NA\\
## Solyc05g015730 & AT5G10140 & MADS-box protein encoded by FLOWERING LOCUS C - transcription factor that functions as a repressor of floral transition and contributes to temperature compensation of the circadian clock. Expression is downregulated during cold treatment. Vernalization, FRI and the autonomous pathway all influence the state of FLC chromatin. Histone H3 trimethylation at lysine 4 and histone acetylation are associated with active FLC expression, whereas histone deacetylation and histone H3 dimethylation at lysines 9 and 27 are involved in FLC repression. Expression is also repressed by two small RNAs (30- and 24-nt) complementary to the FLC sense strand 3’ to the polyA site. The small RNAs are most likely derived from an antisense transcript of FLC. Interacts with SOC1 and FT chromatin in vivo. Member of a protein complex.\\
## \addlinespace
## Solyc05g018130 & AT1G35190 & oxidoreductase, 2OG-Fe(II) oxygenase family protein; similar to oxidoreductase, 2OG-Fe(II) oxygenase family protein [Arabidopsis thaliana] (TAIR:AT3G46480.1); similar to Os01g0188100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042255.1); similar to 2OG-Fe(II) oxygenase [Medicago truncatula] (GB:ABE81241.1); contains InterPro domain Isopenicillin N synthase; (InterPro:IPR002283); contains InterPro domain 2OG-Fe(II) oxygenase; (InterPro:IPR005123)\\
## Solyc05g021550 & NA & NA\\
## Solyc05g024260 & AT5G13170 & nodulin MtN3 family protein; similar to MTN3 (ARABIDOPSIS HOMOLOG OF MEDICAGO TRUNCATULA MTN3) [Arabidopsis thaliana] (TAIR:AT5G23660.1); similar to MtN3 [Medicago truncatula] (GB:CAA69976.1); contains InterPro domain MtN3 and saliva related transmembrane protein; (InterPro:IPR004316)\\
## Solyc05g041700 & NA & NA\\
## Solyc06g008190 & AT1G13040 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G62910.1); similar to Os07g0688100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060699.1); similar to hypothetical protein MtrDRAFT_AC139526g28v1 [Medicago truncatula] (GB:ABE80159.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc06g009710 & NA & NA\\
## Solyc06g009900 & NA & NA\\
## Solyc06g036180 & NA & NA\\
## Solyc06g050270 & AT5G58380 & Encodes a CBL-interacting protein kinase with similarity to SOS protein kinase.\\
## Solyc06g068160 & AT1G15330 & CBS domain-containing protein; similar to CBS domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G80090.1); similar to SNF4b [Medicago truncatula] (GB:AAO61675.1); contains InterPro domain CBS; (InterPro:IPR000644)\\
## \addlinespace
## Solyc06g069670 & NA & NA\\
## Solyc06g075350 & AT3G45590 & Encodes a catalytic subunit of tRNA splicing endonuclease.\\
## Solyc06g082130 & AT4G33070 & pyruvate decarboxylase, putative; similar to PDC3 (PYRUVATE DECARBOXYLASE-3), pyruvate decarboxylase [Arabidopsis thaliana] (TAIR:AT5G01330.1); similar to PDC2 (PYRUVATE DECARBOXYLASE-2), pyruvate decarboxylase [Arabidopsis thaliana] (TAIR:AT5G54960.1); similar to pyruvate decarboxylase, putative [Arabidopsis thaliana] (TAIR:AT5G01320.1); similar to pyruvate decarboxylase [Fragaria x ananassa] (GB:AAL37492.1); similar to pyruvate decarboxylase [Dianthus caryophyllus] (GB:AAP96920.1); similar to pyruvate decarboxylase 1 [Lotus corniculatus] (GB:AAO72533.1); contains InterPro domain Thiamine pyrophosphate enzyme, N-terminal TPP binding region; (InterPro:IPR012001); contains InterPro domain Thiamine pyrophosphate enzyme, central region; (InterPro:IPR012000); contains InterPro domain Pyruvate decarboxylase/indolepyruvate decarboxylase; (InterPro:IPR012110); contains InterPro domain Thiamine pyrophosphate enzyme, C-terminal TPP-binding; (InterPro:IPR011766)\\
## Solyc06g082170 & NA & NA\\
## Solyc07g005790 & AT5G57880 & similar to unnamed protein product; gene_id:MTI20.12 unknown protein [Medicago truncatula] (GB:ABE78807.1)\\
## \addlinespace
## Solyc07g008530 & AT3G02660 & tRNA synthetase class I (W and Y) family protein; similar to Os01g0500900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043131.1); similar to Tyrosyl-tRNA synthetase (ISS) [Ostreococcus tauri] (GB:CAL52305.1); contains InterPro domain Tyrosyl-tRNA synthetase, class Ib; (InterPro:IPR002307); contains InterPro domain Aminoacyl-tRNA synthetase, class I; (InterPro:IPR001412); contains InterPro domain RNA-binding S4; (InterPro:IPR002942); contains InterPro domain Aminoacyl-tRNA synthetase, class Ib; (InterPro:IPR002305)\\
## Solyc07g024020 & AT1G47380 & protein phosphatase 2C-related / PP2C-related; similar to protein phosphatase type 2C [Arabidopsis thaliana] (TAIR:AT1G68410.2); similar to Os02g0567200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047178.1); similar to Os03g0395100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050291.1); similar to Unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAK52556.1); contains InterPro domain Protein phosphatase 2C-like; (InterPro:IPR001932)\\
## Solyc07g045180 & NA & NA\\
## Solyc07g045400 & NA & NA\\
## Solyc07g052240 & AT1G76160 & SKS5 (SKU5 Similar 5); copper ion binding / oxidoreductase; similar to SKS6 (SKU5 Similar 6), pectinesterase [Arabidopsis thaliana] (TAIR:AT1G41830.1); similar to SKS8 (SKU5 Similar 8), copper ion binding / oxidoreductase [Arabidopsis thaliana] (TAIR:AT1G21850.1); similar to SKS7 (SKU5 Similar 7), copper ion binding / oxidoreductase [Arabidopsis thaliana] (TAIR:AT1G21860.1); similar to pectinesterase [Solanum lycopersicum] (GB:CAB08077.1); similar to PS60 [Nicotiana tabacum] (GB:CAA65634.1); similar to Multicopper oxidase, type 1 [Medicago truncatula] (GB:ABE89109.1); contains InterPro domain Cupredoxin; (InterPro:IPR008972); contains InterPro domain Multicopper oxidase, type 3; (InterPro:IPR011707); contains InterPro domain Multicopper oxidase, type 2; (InterPro:IPR011706); contains InterPro domain Multicopper oxidase, type 1; (InterPro:IPR001117)\\
## \addlinespace
## Solyc07g053820 & AT2G20635 & similar to spindle checkpoint protein-related [Arabidopsis thaliana] (TAIR:AT2G33560.1); similar to Os02g0193600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046171.1); similar to Cellular retinaldehyde-binding/triple function, C-terminal [Medicago truncatula] (GB:ABE79666.1); contains InterPro domain Mad3/BUB1 homology region 1; (InterPro:IPR013212)\\
## Solyc08g006200 & NA & NA\\
## Solyc08g077490 & AT4G17140 & pleckstrin homology (PH) domain-containing protein; similar to C2 domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G48090.2); similar to vacuolar protein sorting 13C protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD19476.1); contains InterPro domain Pleckstrin-like; (InterPro:IPR001849); contains InterPro domain Pleckstrin homology-type; (InterPro:IPR011993)\\
## Solyc08g078390 & AT4G16760 & Encodes a medium to long-chain acyl-CoA oxidase. Catalyzing the first step of fatty acid beta-oxidation. Gene expression is induced by wounding, drought stress, abscisic acid, and jasmonate.\\
## Solyc09g008050 & AT2G36970 & UDP-glucoronosyl/UDP-glucosyl transferase family protein; similar to glycosyltransferase family protein [Arabidopsis thaliana] (TAIR:AT2G28080.1); similar to UDP-glucuronosyl/UDP-glucosyltransferase [Medicago truncatula] (GB:ABE87217.1); similar to Os10g0442300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064696.1); contains InterPro domain UDP-glucuronosyl/UDP-glucosyltransferase; (InterPro:IPR002213)\\
## \addlinespace
## Solyc09g009490 & NA & NA\\
## Solyc09g010550 & NA & NA\\
## Solyc09g020150 & NA & NA\\
## Solyc09g037040 & NA & NA\\
## Solyc09g055580 & NA & NA\\
## \addlinespace
## Solyc09g065170 & NA & NA\\
## Solyc09g065350 & NA & NA\\
## Solyc09g074370 & AT4G03115 & mitochondrial substrate carrier family protein; similar to ATPUMP1/UCP1 (UNCOUPLING PROTEIN 1), binding / oxidative phosphorylation uncoupler [Arabidopsis thaliana] (TAIR:AT3G54110.1); similar to Os12g0533800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066927.1); similar to hypothetical protein DDBDRAFT_0218476 [Dictyostelium discoideum AX4] (GB:XP_639144.1); contains InterPro domain Mitochondrial carrier protein; (InterPro:IPR002067); contains InterPro domain Mitochondrial substrate carrier; (InterPro:IPR001993)\\
## Solyc09g082400 & AT1G71490 & pentatricopeptide (PPR) repeat-containing protein; similar to binding [Arabidopsis thaliana] (TAIR:AT1G22830.2); similar to putative pentatricopeptide (PPR) repeat-containing protein [Oryza sativa (japonica cultivar-group)] (GB:BAC57760.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc09g090070 & AT2G38940 & phosphate transporter (AtPT2)\\
## \addlinespace
## Solyc09g090760 & NA & NA\\
## Solyc09g098070 & NA & NA\\
## Solyc10g006570 & NA & NA\\
## Solyc10g055460 & NA & NA\\
## Solyc10g085450 & AT5G01820 & Encodes a CBL-interacting serine/threonine protein kinase.\\
## \addlinespace
## Solyc10g085740 & AT5G03820 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT5G03810.1); similar to Os03g0683800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050914.1); similar to Lipolytic enzyme, G-D-S-L [Medicago truncatula] (GB:ABE90349.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc11g007750 & AT4G28020 & similar to Protein of unknown function UPF0066 [Medicago truncatula] (GB:ABE81280.1); contains InterPro domain Protein of unknown function UPF0066; (InterPro:IPR001378)\\
## Solyc11g011500 & AT3G02850 & member of Stelar K+ outward rectifying channel (SKOR) family. Mediates the delivery of K+ from stelar cells to the xylem in the roots towards the shoot. mRNA accumulation is modulated by abscisic acid. K+ gating activity is modulated by external and internal K+.\\
## Solyc11g061760 & AT5G13070 & MSF1-like family protein; similar to hypothetical protein DDBDRAFT_0188914 [Dictyostelium discoideum AX4] (GB:XP_635610.1); similar to Os02g0717900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047936.1); contains InterPro domain Iron dependent repressor; (InterPro:IPR001367); contains InterPro domain MSF1; (InterPro:IPR006797)\\
## Solyc12g006340 & AT1G30330 & Encodes a member of the auxin response factor family. Mediates auxin response via expression of auxin regulated genes. Acts redundantly with ARF8 to control stamen elongation and flower maturation. Expression of ARF6 is controlled by miR167.\\
## \addlinespace
## Solyc12g006350 & AT1G30330 & Encodes a member of the auxin response factor family. Mediates auxin response via expression of auxin regulated genes. Acts redundantly with ARF8 to control stamen elongation and flower maturation. Expression of ARF6 is controlled by miR167.\\
## Solyc12g006860 & AT2G26710 & Encodes a member of the cytochrome p450 family that serves as a control point between multiple photoreceptor systems and brassinosteroid signal transduction. Involved in brassinolide metabolism. Mediates response to a variety of light signals including hypocotyl elongation and cotyledon expansion.\\
## Solyc12g009260 & AT1G74960 & Encodes a plastidic beta-ketoacyl-ACP synthase II, involved in fatty acid elongation from 16:0-ACP to 18:0-ACP. Homozygous knock-out mutants are embryo lethal, indicating early embryo development is sensitive to elevated 16:0.\\
## Solyc12g009770 & NA & NA\\
## Solyc12g013560 & AT5G54390 & Encodes a 3'-phosphoadenosine-5'-phosphate (PAP) phosphatase that is sensitive to physiological concentrations of Na+. It does not also act as inositol polyphosphate 1-phosphatases, which other members of the HAL2-like family do. It is proposed that AHL acts in concert with sulphotransferases to prevent both the toxicity of PAP on RNA processing enzymes as well as the product inhibition of PAP on sulphate conjugation.\\
## Solyc12g027600 & NA & NA\\
## \bottomrule
## \end{tabular}Cluster 18
Similar to 17, except wtcother remains high.
Solyc11g008830 & AT1G65620 & required for formation of a symmetric flat leaf lamina, encodes a member of a family of proteins characterized by cysteine repeats and a leucine zipper; involved in KNOX gene regulation. Acts together with ASL1 in proximal-distal symmetry determination.\
Solyc03g115270 & AT5G39280 & member of Alpha-Expansin Gene Family. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio)\
Solyc03g093310 & AT5G07670 & F-box family protein; similar to F-box family protein [Arabidopsis thaliana] (TAIR:AT5G51380.1); similar to Os02g0658500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047636.1); similar to Os11g0641200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001068351.1); similar to Leucine Rich Repeat family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95013.1); contains InterPro domain Cyclin-like F-box; (InterPro:IPR001810)\
clusterVis(18)## Using gene as id variables
clusterVis_PCA(18)
clusterVis_line(18)## Using gene, curated as id variables
#clusterGO(18)
y <- genesInClust(18, data.val2, annotation) ## [1] 78kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g009060 & AT1G71750 & phosphoribosyltransferase family protein; similar to Hypoxanthine phosphoribosyl transferase [Desulfotomaculum reducens MI-1] (GB:ZP_01148584.1); contains InterPro domain Hypoxanthine phosphoribosyl transferase; (InterPro:IPR005904); contains InterPro domain Phosphoribosyltransferase; (InterPro:IPR000836); contains InterPro domain Purine/pyrimidine phosphoribosyl transferase; (InterPro:IPR002375)\\
## Solyc00g013100 & NA & NA\\
## Solyc00g020010 & NA & NA\\
## Solyc00g181240 & NA & NA\\
## Solyc01g007870 & AT3G11600 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G06270.1); similar to H0913C04.5 [Oryza sativa (indica cultivar-group)] (GB:CAJ86164.1); similar to Os04g0415000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052757.1); similar to Os02g0536500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047044.1)\\
## \addlinespace
## Solyc01g049810 & NA & NA\\
## Solyc01g057270 & NA & NA\\
## Solyc01g095090 & NA & NA\\
## Solyc01g095160 & AT4G37170 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G22070.1); similar to hypothetical protein MtrDRAFT_AC139526g18v1 [Medicago truncatula] (GB:ABE80149.1); similar to Os03g0235200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049485.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc01g100800 & AT1G56570 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G22070.1); similar to putative PPR986-12 [Oryza sativa (japonica cultivar-group)] (GB:BAD86909.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc01g107270 & AT1G74260 & catalytic; Identical to Probable phosphoribosylformylglycinamidine synthase, chloroplast precursor (EC 6.3.5.3) (FGAM synthase) (FGAMS) (Formylglycinamide ribotide amidotransferase) (FGARAT) (Formylglycinamide ribotide synthetase) [Arabidopsis Thaliana] (GB:Q9M8D3); similar to phosphoribosylformylglycinamidine synthase [Glycine max] (GB:AAO23951.1); similar to formylglycinamide ribonucleotide amidotransferase [Vigna unguiculata] (GB:AAL55431.1); similar to putative formylglycineamide ribotide amidotransferase [Oryza sativa (japonica cultivar-group)] (GB:BAD82369.1); contains InterPro domain Phosphoribosylformylglycinamidine synthase, eukaryotes and proteobacteria; (InterPro:IPR010073); contains InterPro domain AIR synthase related protein, C-terminal; (InterPro:IPR010918); contains InterPro domain AIR synthase related protein; (InterPro:IPR000728)\\
## Solyc01g109190 & NA & NA\\
## Solyc02g011860 & NA & NA\\
## Solyc02g014560 & AT4G32060 & calcium-binding EF hand family protein; similar to Calcium-binding EF-hand [Medicago truncatula] (GB:ABE93293.1); contains InterPro domain EF-Hand type; (InterPro:IPR011992); contains InterPro domain Calcium-binding EF-hand; (InterPro:IPR002048)\\
## Solyc02g032820 & AT4G04720 & member of Calcium Dependent Protein Kinase\\
## \addlinespace
## Solyc02g062880 & NA & NA\\
## Solyc02g065690 & AT5G49550 & similar to hypothetical protein DDBDRAFT_0205421 [Dictyostelium discoideum AX4] (GB:XP_642335.1); similar to Os02g0190900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046154.1); contains domain gb def: Hypothetical protein (PTHR10668:SF1); contains domain PHYTOENE DEHYDROGENASE (PTHR10668)\\
## Solyc02g067740 & AT3G27930 & similar to hypothetical protein MtrDRAFT_AC124951g14v1 [Medicago truncatula] (GB:ABE84845.1); similar to Os05g0577800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056409.1)\\
## Solyc02g068630 & AT3G47840 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G53360.1); similar to hypothetical protein [Thellun (GB:ABB45851.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc02g086570 & NA & NA\\
## \addlinespace
## Solyc02g094310 & NA & NA\\
## Solyc02g094700 & NA & NA\\
## Solyc03g045100 & NA & NA\\
## Solyc03g051780 & AT3G13770 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G24000.1); similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G57430.1); similar to Os06g0613100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058069.1); similar to PPR986-12 [Physcomitrella patens] (GB:BAD67155.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc03g093310 & AT5G07670 & F-box family protein; similar to F-box family protein [Arabidopsis thaliana] (TAIR:AT5G51380.1); similar to Os02g0658500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047636.1); similar to Os11g0641200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001068351.1); similar to Leucine Rich Repeat family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95013.1); contains InterPro domain Cyclin-like F-box; (InterPro:IPR001810)\\
## \addlinespace
## Solyc03g096660 & AT5G06060 & tropinone reductase, putative / tropine dehydrogenase, putative; similar to tropinone reductase, putative / tropine dehydrogenase, putative [Arabidopsis thaliana] (TAIR:AT2G29290.1); similar to Tropinone reductase, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF95188.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc03g097750 & NA & NA\\
## Solyc03g112440 & AT5G40420 & Encodes oleosin2, a protein found in oil bodies, involved in seed lipid accumulation. Suppression of OLEO1 (and OLEO2) resulted in an aberrant phenotype of embryo cells that contain unusually large oilbodies that are not normally observed in seeds. Changes in the size of oilbodies caused disruption of storage organelles, altering accumulation of lipids and proteins and causing delay in germination.\\
## Solyc03g115270 & AT5G39280 & member of Alpha-Expansin Gene Family. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio)\\
## Solyc03g115790 & NA & NA\\
## \addlinespace
## Solyc04g014750 & NA & NA\\
## Solyc04g016540 & NA & NA\\
## Solyc04g076240 & NA & NA\\
## Solyc04g076250 & NA & NA\\
## Solyc05g007570 & NA & NA\\
## \addlinespace
## Solyc05g008330 & AT1G71060 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G77360.1); similar to pentatricopeptide, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF98845.1); similar to putative reverse transcriptase [Oryza sativa (japonica cultivar-group)] (GB:AAK71569.2); similar to Os01g0505500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043145.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc05g010620 & AT1G68930 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G22070.1); similar to Os02g0106300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045627.1); similar to Os03g0775400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051430.1); similar to hypothetical protein [Oryza sativa] (GB:AAL31064.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc06g011490 & NA & NA\\
## Solyc06g060050 & AT5G15340 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G29760.1); similar to Pentatricopeptide repeat [Medicago truncatula] (GB:ABE86760.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc06g065080 & NA & NA\\
## \addlinespace
## Solyc06g076090 & AT3G12110 & Encodes an actin that is expressed predominantly during reproductive development.\\
## Solyc07g007450 & AT4G22220 & Encodes a mitochondrial protein similar to E.coli IscU. In bacteria, IscU is a scaffold protein accepting sulfur and iron to build a transient Fe-S cluster,which is subsequently transferred to a target apoprotein.\\
## Solyc07g007660 & NA & NA\\
## Solyc07g008650 & AT1G48175 & EMB2191 (EMBRYO DEFECTIVE 2191); hydrolase/ zinc ion binding; similar to cytidine/deoxycytidylate deaminase family protein [Arabidopsis thaliana] (TAIR:AT1G68720.1); similar to Os03g0321900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049964.1); similar to PREDICTED: similar to deaminase domain containing 1 isoform 1 [Macaca mulatta] (GB:XP_001091638.1); contains InterPro domain CMP/dCMP deaminase, zinc-binding; (InterPro:IPR002125)\\
## Solyc07g014720 & NA & NA\\
## \addlinespace
## Solyc07g017240 & NA & NA\\
## Solyc07g018180 & NA & NA\\
## Solyc07g052800 & AT5G17680 & disease resistance protein (TIR-NBS-LRR class), putative; similar to disease resistance protein (TIR-NBS-LRR class), putative [Arabidopsis thaliana] (TAIR:AT5G11250.1); similar to disease resistance protein (TIR-NBS-LRR class), putative [Arabidopsis thaliana] (TAIR:AT2G14080.1); similar to disease resistance protein (TIR-NBS-LRR class), putative [Arabidopsis thaliana] (TAIR:AT5G18360.1); similar to TIR-NBS-LRR-TIR type disease resistance protein [Populus trichocarpa] (GB:ABF81437.1); contains InterPro domain NB-ARC; (InterPro:IPR002182); contains InterPro domain Disease resistance protein; (InterPro:IPR000767); contains InterPro domain Toll-Interleukin receptor; (InterPro:IPR000157); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, typical subtype; (InterPro:IPR003591); contains InterPro domain Leucine-rich repeat 3; (InterPro:IPR011713); contains InterPro domain Winged helix repressor DNA-binding; (InterPro:IPR011991)\\
## Solyc07g053380 & NA & NA\\
## Solyc08g007350 & NA & NA\\
## \addlinespace
## Solyc08g008480 & NA & NA\\
## Solyc08g015770 & AT1G53490 & DNA binding; similar to hypothetical protein DDBDRAFT_0190305 [Dictyostelium discoideum AX4] (GB:XP_646013.1); similar to Os02g0232100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046371.1); contains domain RING/U-box (SSF57850); contains domain no description (G3D.1.20.5.170); contains domain no description (G3D.3.30.40.10)\\
## Solyc08g065240 & NA & NA\\
## Solyc08g068380 & NA & NA\\
## Solyc08g074550 & AT5G26830 & threonyl-tRNA synthetase / threonine--tRNA ligase (THRRS); Identical to Threonyl-tRNA synthetase, mitochondrial precursor (EC 6.1.1.3) (Threonine--tRNA ligase) (ThrRS) (THRRS) [Arabidopsis Thaliana] (GB:O04630;GB:O81907;GB:Q84TG4;GB:Q94AG0); similar to threonyl-tRNA synthetase, putative / threonine--tRNA ligase, putative [Arabidopsis thaliana] (TAIR:AT2G04842.1); similar to threonyl-tRNA synthetase [Dictyostelium discoideum AX4] (GB:XP_636821.1); similar to threonyl-tRNA synthetase [Aedes aegypti] (GB:EAT47704.1); similar to threonyl-tRNA synthetase [Oryza sativa (japonica cultivar-group)] (GB:CAC79651.1); contains InterPro domain Anticodon-binding; (InterPro:IPR004154); contains InterPro domain TGS; (InterPro:IPR004095); contains InterPro domain 2Fe-2S Ferredoxin-like fold; (InterPro:IPR012675); contains InterPro domain Threonyl/alanyl tRNA synthetase, SAD; (InterPro:IPR012947); contains InterPro domain Threonyl-tRNA synthetase, class IIa; (InterPro:IPR002320); contains InterPro domain tRNA synthetase, class II (G, H, P and S); (InterPro:IPR002314); contains InterPro domain TGS-like; (InterPro:IPR012676); contains InterPro domain Aminoacyl-transfer RNA synthetase, class II; (InterPro:IPR006195)\\
## \addlinespace
## Solyc08g082880 & AT1G64600 & similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAC84790.1); contains domain no description (G3D.3.40.50.150); contains domain S-adenosyl-L-methionine-dependent methyltransferases (SSF53335); contains domain CYTOCHROME C OXIDASE ASSEMBLY PROTEIN COX11 (PTHR21320)\\
## Solyc09g007630 & AT5G03160 & DNAJ heat shock N-terminal domain-containing protein; similar to DNAJ heat shock protein, putative [Arabidopsis thaliana] (TAIR:AT5G25530.1); similar to P58IPK [Lycopersicon esculentum] (GB:AAP41818.1); similar to Heat shock protein DnaJ, N-terminal [Medicago truncatula] (GB:ABE83449.1); contains InterPro domain Tetratricopeptide region; (InterPro:IPR013026); contains InterPro domain Tetratricopeptide TPR_1; (InterPro:IPR001440); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide TPR_2; (InterPro:IPR013105); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990); contains InterPro domain Heat shock protein DnaJ, N-terminal; (InterPro:IPR001623)\\
## Solyc09g009150 & AT5G03700 & PAN domain-containing protein; similar to lectin protein kinase family protein [Arabidopsis thaliana] (TAIR:AT4G32300.1); similar to S-receptor kinase-like protein, putative [Oryza sativa (japonica cultivar-group)] (GB:AAX92753.1); similar to Os02g0527900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047006.1); contains InterPro domain Apple-like; (InterPro:IPR003609); contains InterPro domain N/apple PAN; (InterPro:IPR003014); contains InterPro domain Curculin-like (mannose-binding) lectin; (InterPro:IPR001480)\\
## Solyc09g010070 & NA & NA\\
## Solyc09g061960 & NA & NA\\
## \addlinespace
## Solyc09g075210 & NA & NA\\
## Solyc10g005210 & AT5G44680 & methyladenine glycosylase family protein; similar to methyladenine glycosylase family protein [Arabidopsis thaliana] (TAIR:AT3G12710.1); similar to Methyladenine glycosylase [Medicago truncatula] (GB:ABE81339.1); contains InterPro domain Methyladenine glycosylase; (InterPro:IPR005019); contains InterPro domain DNA glycosylase; (InterPro:IPR011257)\\
## Solyc10g024400 & NA & NA\\
## Solyc10g080530 & NA & NA\\
## Solyc10g080560 & AT3G12040 & DNA-3-methyladenine glycosylase (MAG); Identical to DNA-3-methyladenine glycosylase (EC 3.2.2.21) (3-methyladenine DNA glycosidase) (MAG) [Arabidopsis Thaliana] (GB:Q39147); similar to putative DNA-3-methyladenine glycosylase [Oryza sativa (japonica cultivar-group)] (GB:BAD17141.1); similar to Os02g0774500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048275.1); contains InterPro domain Formyl transferase, C-terminal-like; (InterPro:IPR011034); contains InterPro domain Methylpurine-DNA glycosylase (MPG); (InterPro:IPR003180)\\
## \addlinespace
## Solyc10g084610 & AT3G55280 & 60S ribosomal protein L23A (RPL23aB); Identical to 60S ribosomal protein L23a-2 (RPL23AB) [Arabidopsis Thaliana] (GB:Q9M3C3); similar to ATRPL23A (RIBOSOMAL PROTEIN L23A), RNA binding / structural constituent of ribosome [Arabidopsis thaliana] (TAIR:AT2G39460.1); similar to unknown [Brassica rapa] (GB:ABB97038.1); contains InterPro domain Ribosomal protein L23, N-terminal; (InterPro:IPR005633); contains InterPro domain Ribosomal L23 and L15e, core; (InterPro:IPR012678); contains InterPro domain Nucleotide-binding, alpha-beta plait; (InterPro:IPR012677); contains InterPro domain Ribosomal protein L25/L23; (InterPro:IPR013025); contains InterPro domain Ribosomal L23 protein; (InterPro:IPR001014)\\
## Solyc11g005400 & NA & NA\\
## Solyc11g008830 & AT1G65620 & required for formation of a symmetric flat leaf lamina, encodes a member of a family of proteins characterized by cysteine repeats and a leucine zipper; involved in KNOX gene regulation. Acts together with ASL1 in proximal-distal symmetry determination.\\
## Solyc11g009040 & NA & NA\\
## Solyc11g010940 & NA & NA\\
## \addlinespace
## Solyc11g017280 & NA & NA\\
## Solyc11g021280 & ATCG01130 & Identical to Putative membrane protein ycf1 (ycf1-B) [Arabidopsis Thaliana] (GB:P56785); similar to hypothetical chloroplast RF1 [Gossypium hirsutum] (GB:YP_538982.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41305.1); similar to hypothetical chloroplast RF1 [Eucalyptus globulus subsp. globulus] (GB:YP_636357.1); contains InterPro domain Ycf1; (InterPro:IPR008896)\\
## Solyc11g030730 & NA & NA\\
## Solyc11g045500 & NA & NA\\
## Solyc11g072990 & AT1G07720 & beta-ketoacyl-CoA synthase family protein; Identical to 3-ketoacyl-CoA synthase 3 (EC 2.3.1.-) (KCS-3) (Very-long-chain fatty acid condensing enzyme 3) (VLCFA condensing enzyme 3) (KCS3) [Arabidopsis Thaliana] (GB:Q9LQP8); similar to beta-ketoacyl-CoA synthase family protein [Arabidopsis thaliana] (TAIR:AT2G28630.1); similar to 3-ketoacyl-CoA synthase 3 (KCS-3) (Very-long-chain fatty acid condensing enzyme 3) (VLCFA condensing enzyme 3) (GB:Q9LQP8); similar to Chalcone and stilbene synthases, N-terminal [Medicago truncatula] (GB:ABE84281.1); similar to Chalcone and stilbene synthases, N-terminal [Medicago truncatula] (GB:ABE80003.1); contains InterPro domain FAE1/Type III polyketide synthase-like protein; (InterPro:IPR013601); contains InterPro domain 3-Oxoacyl-[acyl-carrier-protein (ACP)] synthase III C terminal; (InterPro:IPR013747); contains InterPro domain Very-long-chain 3-ketoacyl-CoA synthase; (InterPro:IPR012392)\\
## \addlinespace
## Solyc12g013760 & NA & NA\\
## Solyc12g014000 & AT3G15200 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G15010.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAB03620.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc12g044740 & AT1G51710 & Ubiquitin-specific protease 6 (UBP6). Deubiquinating enzyme. Interacts with calmodulin.\\
## \bottomrule
## \end{tabular}Cluster 19
Solyc10g079750 & AT2G41370 & Encodes a cytoplasmic and nuclear-localized NPR1 like protein with BTB/POZ domain and ankyrin repeats. Interacts with BOP1 and appears to be genetically redundant with BOP1.bop1/bop2 double mutants have longer leaves, often with leaflets on the petiole, and asymmetric flowers with extra organs.\
Solyc10g086530 & AT2G37650 & scarecrow-like transcription factor 9 (SCL9); similar to scarecrow-like transcription factor 14 (SCL14) [Arabidopsis thaliana] (TAIR:AT1G07530.1); similar to SCARECROW-like protein [Lilium lon (GB:BAC77269.2); similar to Os03g0690600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050952.1); contains InterPro domain GRAS transcription factor; (InterPro:IPR005202)\
Solyc05g054170 & AT4G17230 & Encodes a scarecrow-like protein (SCL13). Member of GRAS gene family.\
Solyc03g112590 & AT5G03340 & (Cell division control protein 48 homolog E); ATPase; Identical to Cell division control protein 48 homolog E (AtCDC48e)
Solyc02g093860 & AT5G40780 & Encodes LHT1 (lysine histidine transporter), a high-affinity transporter for cellular amino acid uptake in both root epidermis and leaf mesophyll.\
Solyc01g087450 & AT5G21080 & similar to cyclin-related [Arabidopsis thaliana] (TAIR:AT2G41830.1); similar to putative cyclin-related protein [Malus x domestica]
clusterVis(19)## Using gene as id variables
clusterVis_PCA(19)
clusterVis_line(19)## Using gene, curated as id variables
#clusterGO(19)
y <- genesInClust(19, data.val2, annotation) ## [1] 132kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g010770 & NA & NA\\
## Solyc00g015600 & NA & NA\\
## Solyc00g118680 & NA & NA\\
## Solyc01g005450 & NA & NA\\
## Solyc01g005850 & NA & NA\\
## \addlinespace
## Solyc01g087450 & AT5G21080 & similar to cyclin-related [Arabidopsis thaliana] (TAIR:AT2G41830.1); similar to putative cyclin-related protein [Malus x domestica] (GB:CAJ44368.1); similar to At1g05960/T21E18_20 [Medicago truncatula] (GB:ABE90589.1); similar to hypothetical protein MtrDRAFT_AC136506g30v1 [Medicago truncatula] (GB:ABE82339.1); contains domain UNCHARACTERIZED (PTHR12444)\\
## Solyc01g095530 & NA & NA\\
## Solyc01g096250 & NA & NA\\
## Solyc01g096620 & NA & NA\\
## Solyc01g096880 & AT2G26690 & nitrate transporter (NTP2); similar to NRT1.1 (nitrate transporter 1.1), transporter [Arabidopsis thaliana] (TAIR:AT1G12110.1); similar to putative dicarboxylate transporter [Oryza sativa (japonica cultivar-group)] (GB:BAD87491.1); similar to dicarboxylate transporter [Alnus glutinosa] (GB:CAD32549.1); similar to Os01g0556700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043326.1); contains InterPro domain TGF-beta receptor, type I/II extracellular region; (InterPro:IPR000109)\\
## \addlinespace
## Solyc01g096930 & AT5G04930 & Encodes a putative aminophospholipid translocase (p-type ATPase) involved in chilling response.\\
## Solyc01g097540 & AT2G38760 & Annexins are calcium binding proteins that are localized in the cytoplasm. When cytosolic Ca2+ increases, they relocate to the plasma membrane.\\
## Solyc01g099870 & AT4G15920 & nodulin MtN3 family protein; similar to nodulin MtN3 family protein [Arabidopsis thaliana] (TAIR:AT3G16690.1); similar to MtN3/saliva family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF95863.1); contains InterPro domain MtN3 and saliva related transmembrane protein; (InterPro:IPR004316)\\
## Solyc01g100940 & NA & NA\\
## Solyc01g106660 & NA & NA\\
## \addlinespace
## Solyc01g106820 & AT1G17870 & S2P-like putative metalloprotease, also contain transmembrane helices near their C-termini and many of them, five of seven, contain a conserved zinc-binding motif HEXXH. Homolog of EGY1. Each of the EGY1 and EGY-like proteins share two additional highly conserved motifs, the previously reported NPDG motif (aa 442–454 in EGY1, Rudner et al., 1999) and a newly defined GNLR motif (aa 171–179 in EGY1). The GNLR motif is a novel signature motif unique to EGY1 and EGY-like proteins as well as other EGY1 orthologs found in cyanobacteria.\\
## Solyc02g063200 & AT5G16120 & hydrolase, alpha/beta fold family protein; similar to hydrolase, alpha/beta fold family protein [Arabidopsis thaliana] (TAIR:AT1G77420.1); similar to Alpha/beta hydrolase [Medicago truncatula] (GB:ABE78761.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073); contains InterPro domain Alpha/beta hydrolase; (InterPro:IPR003089)\\
## Solyc02g065230 & NA & NA\\
## Solyc02g067150 & NA & NA\\
## Solyc02g069310 & AT5G45110 & Encodes a paralog of NPR1. Involved in negative regulation of defense responses against bacterial and oomycete pathogens. npr3 mutants has elevated level of PR1 expression. Interacts with TGA2, TGA3, TGA5 and TGA6 in yeast two hybrid assays.\\
## \addlinespace
## Solyc02g069970 & AT1G30570 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G54380.1); similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT5G59700.1); similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT3G46290.1); similar to l1332.5 [Oryza sativa (indica cultivar-group)] (GB:CAB51834.1); similar to Protein kinase [Medicago truncatula] (GB:ABE93789.1); similar to H0714H04.1 [Oryza sativa (indica cultivar-group)] (GB:CAH66974.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc02g077030 & AT4G18550 & lipase class 3 family protein; similar to lipase class 3 family protein [Arabidopsis thaliana] (TAIR:AT1G06250.1); similar to Ipomoea nil Pn47p (GB:AAB07724.1); similar to Os05g0574000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056386.1); similar to Os05g0574100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056387.1); contains InterPro domain Lipase, class 3; (InterPro:IPR002921)\\
## Solyc02g083740 & AT4G10770 & oligopeptide transporter\\
## Solyc02g088140 & NA & NA\\
## Solyc02g089650 & NA & NA\\
## \addlinespace
## Solyc02g091980 & NA & NA\\
## Solyc02g093350 & AT5G40500 & similar to Os04g0482900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053120.1); similar to unnamed protein product [Ostreococcus tauri] (GB:CAL55654.1)\\
## Solyc02g093860 & AT5G40780 & Encodes LHT1 (lysine histidine transporter), a high-affinity transporter for cellular amino acid uptake in both root epidermis and leaf mesophyll.\\
## Solyc03g034000 & NA & NA\\
## Solyc03g051630 & NA & NA\\
## \addlinespace
## Solyc03g077920 & AT5G06850 & C2 domain-containing protein; similar to C2 domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G48060.1); similar to C2 domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G51570.1); similar to C2 domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G57880.1); similar to H0305E08.5 [Oryza sativa (indica cultivar-group)] (GB:CAH67434.1); similar to C2 [Medicago truncatula] (GB:ABE89860.1); similar to C2 [Medicago truncatula] (GB:ABE85066.1); contains InterPro domain C2; (InterPro:IPR000008); contains InterPro domain Phosphoribosyltransferase C-terminal, plant; (InterPro:IPR013583); contains InterPro domain C2 calcium/lipid-binding region, CaLB; (InterPro:IPR008973)\\
## Solyc03g094070 & NA & NA\\
## Solyc03g112590 & AT5G03340 & (Cell division control protein 48 homolog E); ATPase; Identical to Cell division control protein 48 homolog E (AtCDC48e) (Transitional endoplasmic reticulum ATPase E) (CDC48E) [Arabidopsis Thaliana] (GB:Q9LZF6); similar to cell division cycle protein 48, putative / CDC48, putative [Arabidopsis thaliana] (TAIR:AT3G53230.1); similar to CDC48 (CELL DIVISION CYCLE 48), ATPase [Arabidopsis thaliana] (TAIR:AT3G09840.1); similar to putative spindle disassembly related protein CDC48 [Nicotiana tabacum] (GB:ABF59516.1); similar to Cell division cycle protein 48 homolog (Valosin-containing protein homolog) (VCP) (GB:P54774); similar to Cell division cycle protein 48, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:AAP53974.2); contains InterPro domain Aspartate decarboxylase-like fold; (InterPro:IPR009010); contains InterPro domain AAA-protein subdomain; (InterPro:IPR003960); contains InterPro domain AAA ATPase, CDC48; (InterPro:IPR005938); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase VAT, N-terminal; (InterPro:IPR003338); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc03g119550 & NA & NA\\
## Solyc03g122360 & NA & NA\\
## \addlinespace
## Solyc04g006960 & AT3G25620 & ABC transporter family protein; Identical to White-brown complex homolog protein 21 (WBC21) [Arabidopsis Thaliana] (GB:Q7XA72;GB:Q9LI82); similar to ABC transporter family protein [Arabidopsis thaliana] (TAIR:AT1G31770.1); similar to ABC transporter-like protein [Brassica rapa] (GB:ABB97034.1); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain ABC transporter related; (InterPro:IPR003439)\\
## Solyc04g006970 & AT1G68750 & Encodes one of four Arabidopsis phosphoenolpyruvate carboxylase proteins.\\
## Solyc04g007470 & NA & NA\\
## Solyc04g014600 & AT3G03270 & universal stress protein (USP) family protein / early nodulin ENOD18 family protein; similar to universal stress protein (USP) family protein [Arabidopsis thaliana] (TAIR:AT3G53990.1); similar to Universal stress protein (Usp) [Medicago truncatula] (GB:ABE83259.1); contains InterPro domain Universal stress protein (Usp); (InterPro:IPR006015); contains InterPro domain UspA; (InterPro:IPR006016)\\
## Solyc04g049920 & AT3G54770 & RNA binding; similar to RNA recognition motif (RRM)-containing protein [Arabidopsis thaliana] (TAIR:AT1G20880.1); similar to Os03g0286500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049774.1); similar to Hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAO16994.1); contains InterPro domain Nucleotide-binding, alpha-beta plait; (InterPro:IPR012677); contains InterPro domain RNA-binding region RNP-1 (RNA recognition motif); (InterPro:IPR000504)\\
## \addlinespace
## Solyc04g054930 & AT5G10100 & trehalose-6-phosphate phosphatase, putative; similar to trehalose-6-phosphate phosphatase, putative [Arabidopsis thaliana] (TAIR:AT5G65140.1); similar to 117M18_9 [Brassica rapa] (GB:AAZ66928.1); contains InterPro domain Trehalose-phosphatase; (InterPro:IPR003337); contains InterPro domain HAD-superfamily hydrolase subfamily IIB; (InterPro:IPR006379)\\
## Solyc04g072780 & AT1G22160 & senescence-associated protein-related; similar to senescence-associated protein-related [Arabidopsis thaliana] (TAIR:AT1G78020.1); similar to 80C09_23 [Brassica rapa subsp. pekinensis] (GB:AAZ41834.1); contains InterPro domain Protein of unknown function DUF581; (InterPro:IPR007650)\\
## Solyc04g074360 & AT1G22360 & UDP-glucoronosyl/UDP-glucosyl transferase family protein; similar to UDP-glucoronosyl/UDP-glucosyl transferase family protein [Arabidopsis thaliana] (TAIR:AT1G22340.1); similar to transcription factor/ transferase, transferring glycosyl groups [Arabidopsis thaliana] (TAIR:AT1G22380.1); similar to UGT85A1 (UDP-glucosyl transferase 85A1), UDP-glycosyltransferase/ transferase, transferring glycosyl groups / transferase, transferring hexosyl groups [Arabidopsis thaliana] (TAIR:AT1G22400.1); similar to glycosyltransferase NTGT5b [Nicotiana tabacum] (GB:BAD93690.1); similar to glycosyltransferase NTGT5a [Nicotiana tabacum] (GB:BAD93689.1); contains InterPro domain UDP-glucuronosyl/UDP-glucosyltransferase; (InterPro:IPR002213)\\
## Solyc04g074900 & AT5G27700 & 40S ribosomal protein S21 (RPS21C); Identical to 40S ribosomal protein S21-2 (RPS21C) [Arabidopsis Thaliana] (GB:Q3E902); similar to 40S ribosomal protein S21 (RPS21B) [Arabidopsis thaliana] (TAIR:AT3G53890.2); similar to Ribosomal protein S21e [Medicago truncatula] (GB:ABD28456.1); contains InterPro domain Ribosomal protein S21e; (InterPro:IPR001931)\\
## Solyc04g079070 & AT2G23000 & SCPL10 (serine carboxypeptidase-like 10); serine carboxypeptidase; similar to SCPL9, serine carboxypeptidase [Arabidopsis thaliana] (TAIR:AT2G23010.1); similar to SNG1 (SINAPOYLGLUCOSE 1), serine carboxypeptidase [Arabidopsis thaliana] (TAIR:AT2G22990.1); similar to SCPL12, serine carboxypeptidase [Arabidopsis thaliana] (TAIR:AT2G22920.2); similar to 1-O-sinapoylglucose:choline sinapoyltransferase [Brassica napus] (GB:AAQ91191.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Peptidase S10, serine carboxypeptidase; (InterPro:IPR001563)\\
## \addlinespace
## Solyc05g005700 & AT1G23800 & Encodes a mitochondrial aldehyde dehydrogenase; nuclear gene for mitochondrial product.\\
## Solyc05g006010 & NA & NA\\
## Solyc05g008520 & AT1G22970 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G71150.1); similar to Os05g0554500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056270.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAT58733.1)\\
## Solyc05g010680 & AT3G30380 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G01690.1); similar to Esterase/lipase/thioesterase [Medicago truncatula] (GB:ABD32255.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073)\\
## Solyc05g013190 & AT1G26740 & structural constituent of ribosome; similar to structural constituent of ribosome [Arabidopsis thaliana] (TAIR:AT1G69485.1); similar to Os10g0407100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064568.1); similar to Os03g0168900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049095.1); contains InterPro domain Ribosomal L32p protein; (InterPro:IPR002677)\\
## \addlinespace
## Solyc05g018110 & NA & NA\\
## Solyc05g023970 & ATMG00570 & encodes a protein of unknown function. The transcript has extensive RNA editing at the 3' end. Protein has orthologous in other plants and sequence is similar to E. coli ORFs orf154 and orf131, both of unknown function. So far, similar proteins are found only in plants and prokaryotes.\\
## Solyc05g025830 & NA & NA\\
## Solyc05g050770 & AT1G73300 & SCPL2 (serine carboxypeptidase-like 2); serine carboxypeptidase; similar to SCPL3 (serine carboxypeptidase-like 3), serine carboxypeptidase [Arabidopsis thaliana] (TAIR:AT1G73280.1); similar to SCPL1 (serine carboxypeptidase-like 1), serine carboxypeptidase [Arabidopsis thaliana] (TAIR:AT5G36180.1); similar to SCPL4 (serine carboxypeptidase-like 4), serine carboxypeptidase [Arabidopsis thaliana] (TAIR:AT1G73310.1); similar to Peptidase S10, serine carboxypeptidase [Medicago truncatula] (GB:ABE93325.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Peptidase S10, serine carboxypeptidase; (InterPro:IPR001563)\\
## Solyc05g054170 & AT4G17230 & Encodes a scarecrow-like protein (SCL13). Member of GRAS gene family.\\
## \addlinespace
## Solyc06g006000 & NA & NA\\
## Solyc06g007240 & NA & NA\\
## Solyc06g017850 & NA & NA\\
## Solyc06g034390 & AT5G51550 & phosphate-responsive 1 family protein; similar to phosphate-responsive 1 family protein [Arabidopsis thaliana] (TAIR:AT2G17230.1); similar to unknown [Sorghum bicolor] (GB:AAQ06267.1); contains InterPro domain Phosphate-induced protein 1 conserved region; (InterPro:IPR006766)\\
## Solyc06g050800 & AT3G56200 & amino acid transporter family protein; similar to amino acid transporter family protein [Arabidopsis thaliana] (TAIR:AT2G40420.1); similar to Amino acid/polyamine transporter II [Medicago truncatula] (GB:ABE86055.1); contains InterPro domain Amino acid/polyamine transporter II; (InterPro:IPR002422); contains InterPro domain Amino acid transporter, transmembrane; (InterPro:IPR013057)\\
## \addlinespace
## Solyc06g050830 & NA & NA\\
## Solyc06g050970 & NA & NA\\
## Solyc06g051500 & NA & NA\\
## Solyc06g060690 & NA & NA\\
## Solyc06g060700 & NA & NA\\
## \addlinespace
## Solyc06g065770 & NA & NA\\
## Solyc06g068020 & NA & NA\\
## Solyc06g068450 & AT5G25110 & member of AtCIPKs\\
## Solyc06g070900 & NA & NA\\
## Solyc06g072360 & AT1G68130 & ATIDD14 (ARABIDOPSIS THALIANA INDETERMINATE(ID)-DOMAIN 14); nucleic acid binding / transcription factor/ zinc ion binding; similar to ATIDD16 (ARABIDOPSIS THALIANA INDETERMINATE(ID)-DOMAIN 16), nucleic acid binding / transcription factor/ zinc ion binding [Arabidopsis thaliana] (TAIR:AT1G25250.1); similar to Os09g0449400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063321.1); similar to putative zinc finger protein ID1 [Oryza sativa (japonica cultivar-group)] (GB:BAD37964.1); contains InterPro domain Zinc finger, C2H2-type; (InterPro:IPR007087)\\
## \addlinespace
## Solyc06g075240 & NA & NA\\
## Solyc06g075260 & NA & NA\\
## Solyc06g076240 & NA & NA\\
## Solyc06g082460 & NA & NA\\
## Solyc06g083020 & AT4G12910 & SCPL20 (serine carboxypeptidase-like 20); serine carboxypeptidase; similar to SCPL21 (serine carboxypeptidase-like 21), serine carboxypeptidase [Arabidopsis thaliana] (TAIR:AT3G25420.1); similar to wound-inducible carboxypeptidase [Lycopersicon esculentum] (GB:AAF44708.1); similar to Peptidase S10, serine carboxypeptidase [Medicago truncatula] (GB:ABE89792.1); contains InterPro domain Peptidase S10, serine carboxypeptidase; (InterPro:IPR001563)\\
## \addlinespace
## Solyc07g018010 & AT5G57150 & basic helix-loop-helix (bHLH) family protein; similar to basic helix-loop-helix (bHLH) family protein [Arabidopsis thaliana] (TAIR:AT4G29930.1); similar to Helix-loop-helix DNA-binding [Medicago truncatula] (GB:ABE84573.1); contains InterPro domain Helix-loop-helix DNA-binding; (InterPro:IPR011598); contains InterPro domain Basic helix-loop-helix dimerisation region bHLH; (InterPro:IPR001092)\\
## Solyc07g018040 & NA & NA\\
## Solyc07g039430 & NA & NA\\
## Solyc07g041130 & NA & NA\\
## Solyc07g056170 & AT2G04160 & isolated from differential screening of a cDNA library from auxin-treated root culture. encodes a protein similar to subtilisin-like serine protease which is believed to be active outside the plant cell.\\
## \addlinespace
## Solyc07g061800 & AT1G17100 & SOUL heme-binding family protein; similar to SOUL heme-binding family protein [Arabidopsis thaliana] (TAIR:AT1G78450.1); similar to Os01g0210500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042368.1); similar to Os01g0235300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042521.1); similar to novel protein (zgc:56136) [Danio rerio] (GB:CAI11708.1); contains InterPro domain SOUL heme-binding protein; (InterPro:IPR006917)\\
## Solyc07g062750 & AT3G15140 & exonuclease family protein; similar to Os06g0353400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057590.1); similar to SJCHGC03520 protein [Schistosoma japonicum] (GB:AAW27567.1); contains InterPro domain Polynucleotidyl transferase, Ribonuclease H fold; (InterPro:IPR012337); contains InterPro domain Exonuclease, RNase T and DNA polymerase III; (InterPro:IPR013520)\\
## Solyc07g062820 & AT4G18520 & binding; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G39530.1); similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G53360.1); similar to Os03g0644200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050757.1); similar to PPR986-12 [Physcomitrella patens] (GB:BAD67155.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc07g063860 & AT5G54530 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G61667.1); similar to Os07g0548800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059929.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAC57724.1); contains InterPro domain Protein of unknown function DUF538; (InterPro:IPR007493)\\
## Solyc07g065110 & NA & NA\\
## \addlinespace
## Solyc08g005500 & NA & NA\\
## Solyc08g005890 & NA & NA\\
## Solyc08g013770 & NA & NA\\
## Solyc08g044450 & NA & NA\\
## Solyc08g062970 & AT4G33040 & glutaredoxin family protein; Identical to Glutaredoxin-C6 (AtGrxC6) (GRXC6) [Arabidopsis Thaliana] (GB:Q8L9S3;GB:O82644); similar to glutaredoxin family protein [Arabidopsis thaliana] (TAIR:AT5G11930.1); similar to Glutaredoxin [Medicago truncatula] (GB:ABE86256.1); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Glutaredoxin; (InterPro:IPR002109); contains InterPro domain Thioredoxin fold; (InterPro:IPR012335); contains InterPro domain Glutaredoxin-like, plant II; (InterPro:IPR011905)\\
## \addlinespace
## Solyc08g065280 & NA & NA\\
## Solyc08g065300 & NA & NA\\
## Solyc08g075820 & AT3G49500 & Encodes RNA-dependent RNA polymerase. Involved in trans-acting siRNA and other siRNA biogenesis. Required for post-transcriptional gene silencing and natural virus resistance.\\
## Solyc08g079690 & NA & NA\\
## Solyc09g018230 & AT5G01830 & armadillo/beta-catenin repeat family protein / U-box domain-containing protein; similar to PUB17 (PLANT U-BOX17), ubiquitin-protein ligase [Arabidopsis thaliana] (TAIR:AT1G29340.1); similar to arm repeat protein [Oryza sativa (japonica cultivar-group)] (GB:AAO72657.1); contains InterPro domain Armadillo; (InterPro:IPR000225); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain U box; (InterPro:IPR003613)\\
## \addlinespace
## Solyc09g020100 & NA & NA\\
## Solyc09g031720 & NA & NA\\
## Solyc09g031850 & ATCG01280 & Identical to Protein ycf2 (ycf2-B) [Arabidopsis Thaliana] (GB:P56786); similar to hypothetical chloroplast RF2 [Vitis vinifera] (GB:YP_567121.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41290.1); similar to hypothetical chloroplast RF2 [Gossypium hirsutum] (GB:YP_538978.1); contains InterPro domain Chloroplast Ycf2; (InterPro:IPR008543); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc09g047840 & NA & NA\\
## Solyc09g059140 & NA & NA\\
## \addlinespace
## Solyc09g065670 & NA & NA\\
## Solyc09g082810 & NA & NA\\
## Solyc10g008000 & AT2G42610 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G07090.1); similar to Protein of unknown function DUF640 [Medicago truncatula] (GB:ABE92798.1); contains InterPro domain Protein of unknown function DUF640; (InterPro:IPR006936)\\
## Solyc10g047470 & ATCG01110 & Encodes the 49KDa plastid NAD(P)H dehydrogenase subunit H protein. Its transcription is regulated by an ndhF-specific plastid sigma factor, SIG4.\\
## Solyc10g054430 & NA & NA\\
## \addlinespace
## Solyc10g054840 & NA & NA\\
## Solyc10g076540 & NA & NA\\
## Solyc10g078220 & AT2G40890 & encodes coumarate 3-hydroxylase (C3H), a P450-dependent monooxygenase. Involved in lignin biosynthesis and flavonoid biosynthesis. Also affects the biosynthesis of coumarins such as scopoletin and scopolin as a branching-out-pathway from the phenylpropanoid acid level.\\
## Solyc10g079750 & AT2G41370 & Encodes a cytoplasmic and nuclear-localized NPR1 like protein with BTB/POZ domain and ankyrin repeats. Interacts with BOP1 and appears to be genetically redundant with BOP1.bop1/bop2 double mutants have longer leaves, often with leaflets on the petiole, and asymmetric flowers with extra organs.\\
## Solyc10g080910 & NA & NA\\
## \addlinespace
## Solyc10g085330 & NA & NA\\
## Solyc10g085500 & NA & NA\\
## Solyc10g086270 & NA & NA\\
## Solyc10g086530 & AT2G37650 & scarecrow-like transcription factor 9 (SCL9); similar to scarecrow-like transcription factor 14 (SCL14) [Arabidopsis thaliana] (TAIR:AT1G07530.1); similar to SCARECROW-like protein [Lilium lon (GB:BAC77269.2); similar to Os03g0690600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050952.1); contains InterPro domain GRAS transcription factor; (InterPro:IPR005202)\\
## Solyc11g005460 & AT5G63640 & VHS domain-containing protein / GAT domain-containing protein; similar to VHS domain-containing protein / GAT domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G76970.1); similar to GAT; ENTH/VHS [Medicago truncatula] (GB:ABE83690.1); contains InterPro domain GAT; (InterPro:IPR004152); contains InterPro domain VHS; (InterPro:IPR002014); contains InterPro domain ENTH/VHS; (InterPro:IPR008942)\\
## \addlinespace
## Solyc11g010700 & NA & NA\\
## Solyc11g020100 & NA & NA\\
## Solyc11g039470 & NA & NA\\
## Solyc11g056680 & AT3G20820 & leucine-rich repeat family protein; similar to leucine-rich repeat family protein [Arabidopsis thaliana] (TAIR:AT5G12940.1); similar to polygalacturonase inhibitor-like protein [Cicer arietinum] (GB:CAD56505.1); contains InterPro domain Rudiment single hybrid motif; (InterPro:IPR011054); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc11g061720 & AT1G51170 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT3G20830.1); similar to Os08g0504800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062182.1); similar to Os02g0603000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047362.1); similar to G11A protein (GB:AAA33905.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## \addlinespace
## Solyc11g070000 & NA & NA\\
## Solyc12g009270 & AT5G20740 & invertase/pectin methylesterase inhibitor family protein; similar to invertase/pectin methylesterase inhibitor family protein [Arabidopsis thaliana] (TAIR:AT4G25260.1); similar to invertase/pectin methylesterase inhibitor family protein [Arabidopsis thaliana] (TAIR:AT1G62770.1); similar to putative ripening-related protein [Vitis vinifera] (GB:CAB85625.1); contains InterPro domain Plant invertase/pectin methylesterase inhibitor; (InterPro:IPR007186); contains InterPro domain Pectinesterase inhibitor; (InterPro:IPR006501)\\
## Solyc12g010250 & NA & NA\\
## Solyc12g010440 & AT2G13100 & glycerol-3-phosphate transporter, putative / glycerol 3-phosphate permease, putative; similar to glycerol-3-phosphate transporter, putative / glycerol 3-phosphate permease, putative [Arabidopsis thaliana] (TAIR:AT3G47420.1); similar to putative Glycerol-3-phosphate transporter [Oryza sativa (japonica cultivar-group)] (GB:BAC99502.1); similar to Os04g0555300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053515.1); similar to Os06g0179900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056973.1); contains InterPro domain Major facilitator superfamily; (InterPro:IPR007114); contains InterPro domain Major facilitator superfamily MFS_1; (InterPro:IPR011701)\\
## Solyc12g014520 & NA & NA\\
## \addlinespace
## Solyc12g019150 & NA & NA\\
## Solyc12g033010 & NA & NA\\
## Solyc12g035260 & NA & NA\\
## Solyc12g096480 & NA & NA\\
## Solyc12g096670 & AT2G31820 & ankyrin repeat family protein; similar to ankyrin repeat family protein [Arabidopsis thaliana] (TAIR:AT1G05640.1); similar to Os08g0542700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062394.1); similar to ankyrin-like protein [Oryza sativa (japonica cultivar-group)] (GB:BAD08980.1); similar to Os09g0518500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063687.1); contains InterPro domain Ankyrin; (InterPro:IPR002110)\\
## \addlinespace
## Solyc12g098780 & NA & NA\\
## Solyc12g098910 & AT3G17510 & Encodes a CBL-interacting protein kinase. Specifically interacts with ECT1 and ECT2.\\
## \bottomrule
## \end{tabular}Cluster 20
This is the opposite. It is low in the marginal blastozone regions. Starting to see definite photosynthetic genes,
clusterVis(20)## Using gene as id variables
clusterVis_PCA(20)
clusterVis_line(20)## Using gene, curated as id variables
#clusterGO(20)
y <- genesInClust(20, data.val2, annotation) ## [1] 115kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g007130 & AT4G38250 & amino acid transporter family protein; similar to amino acid transporter family protein [Arabidopsis thaliana] (TAIR:AT2G42005.1); similar to amino acid transport protein (GB:AAB82307.1); similar to OSIGBa0158F05.8 [Oryza sativa (indica cultivar-group)] (GB:CAH66759.1); similar to OSJNBa0017B10.14 [Oryza sativa (japonica cultivar-group)] (GB:CAE03099.2); contains InterPro domain Amino acid/polyamine transporter II; (InterPro:IPR002422); contains InterPro domain Amino acid transporter, transmembrane; (InterPro:IPR013057)\\
## Solyc00g323130 & NA & NA\\
## Solyc01g005060 & AT2G01940 & May be involved in an early event in shoot gravitropism such as gravity perception and/or a signaling process subsequent to amyloplast sedimentation as a putative transcription factor in gravity-perceptive cells.\\
## Solyc01g080570 & AT5G18860 & inosine-uridine preferring nucleoside hydrolase family protein; similar to inosine-uridine preferring nucleoside hydrolase family protein [Arabidopsis thaliana] (TAIR:AT5G18890.1); similar to putative inosine-uridine preferring nucleoside hydrolase [Oryza sativa (japonica cultivar-group)] (GB:AAT38028.1); similar to hypothetical protein [Cleome spinosa] (GB:ABD96887.1); similar to putative inosine-uridine preferring nucleoside hydrolase [Oryza sativa (japonica cultivar-group)] (GB:AAT38027.1); contains InterPro domain Inosine/uridine-preferring nucleoside hydrolase; (InterPro:IPR001910)\\
## Solyc01g081570 & AT1G55360 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G56530.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G13510.1); similar to Os07g0205500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059148.1); similar to Os07g0573400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060067.1); similar to Protein of unknown function DUF239, plant [Medicago truncatula] (GB:ABE82132.1); contains InterPro domain Protein of unknown function DUF239, plant; (InterPro:IPR004314)\\
## \addlinespace
## Solyc01g088250 & NA & NA\\
## Solyc01g090800 & AT3G60550 & CYCP3;2 (cyclin p3;2); cyclin-dependent protein kinase; similar to CYCP3,1 (cyclin p3,1), cyclin-dependent protein kinase [Arabidopsis thaliana] (TAIR:AT2G45080.1); similar to PREG-like protein [Picea mariana] (GB:AAC32127.1); similar to Os04g0552300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053503.1); contains InterPro domain Cyclin, N-terminal; (InterPro:IPR006671); contains InterPro domain Cyclin-like; (InterPro:IPR011028); contains InterPro domain Cyclin-related; (InterPro:IPR013763); contains InterPro domain Negative regulatory factor PREG; (InterPro:IPR012389)\\
## Solyc01g095450 & AT4G01130 & acetylesterase, putative; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT3G26430.1); similar to lanatoside 15-O-acetylesterase [Di (GB:AAY41077.1); similar to lanatoside 15'-O-acetylesterase [Di (GB:CAA09694.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc01g096260 & NA & NA\\
## Solyc01g096280 & AT2G46660 & member of CYP78A\\
## \addlinespace
## Solyc01g099340 & NA & NA\\
## Solyc01g102310 & NA & NA\\
## Solyc01g104720 & NA & NA\\
## Solyc01g105500 & NA & NA\\
## Solyc01g105720 & NA & NA\\
## \addlinespace
## Solyc01g107370 & NA & NA\\
## Solyc01g107670 & AT2G15320 & leucine-rich repeat family protein; similar to leucine-rich repeat family protein [Arabidopsis thaliana] (TAIR:AT5G66330.1); similar to Os02g0647300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047577.1); similar to brassinosteroid receptor [Pisum sativum] (GB:BAC99050.1); similar to Os01g0818700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044633.1); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090)\\
## Solyc01g109270 & NA & NA\\
## Solyc01g110700 & NA & NA\\
## Solyc01g111880 & AT4G38470 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT2G17700.1); similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT4G35780.1); similar to flag-tagged protein kinase domain of putative mitogen-activated protein kinase kinase kinase [synthetic construct] (GB:ABK06436.1); similar to Protein kinase; Amino acid-binding ACT [Medicago truncatula] (GB:ABE89440.1); similar to flag-tagged protein kinase domain of putative mitogen-activated protein kinase kinase kinase [synthetic construct] (GB:ABK06437.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Amino acid-binding ACT; (InterPro:IPR002912)\\
## \addlinespace
## Solyc02g020940 & AT1G12900 & GAPA-2; glyceraldehyde-3-phosphate dehydrogenase; similar to GAPA (GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE A SUBUNIT), glyceraldehyde-3-phosphate dehydrogenase [Arabidopsis thaliana] (TAIR:AT3G26650.1); similar to glyceraldehyde-3-phosphate dehydrogenase A subunit [Glycine max] (GB:ABA86963.1); similar to Glyceraldehyde-3-phosphate dehydrogenase A, chloroplast precursor (NADP-dependent glyceraldehydephosphate dehydrogenase subunit A) (GB:P19866); similar to Glyceraldehyde-3-phosphate dehydrogenase A, chloroplast precursor (NADP-dependent glyceraldehydephosphate dehydrogenase subunit A) (GB:P12858); contains InterPro domain Glyceraldehyde-3-phosphate dehydrogenase, type I; (InterPro:IPR006424); contains InterPro domain Glyceraldehyde 3-phosphate dehydrogenase; (InterPro:IPR000173)\\
## Solyc02g037550 & AT1G76520 & auxin efflux carrier family protein; similar to auxin efflux carrier family protein [Arabidopsis thaliana] (TAIR:AT1G76530.1); similar to Auxin Efflux Carrier [Medicago truncatula] (GB:ABE88820.1); contains InterPro domain Auxin Efflux Carrier; (InterPro:IPR004776)\\
## Solyc02g063030 & NA & NA\\
## Solyc02g064720 & AT5G67385 & signal transducer; similar to phototropic-responsive protein, putative [Arabidopsis thaliana] (TAIR:AT3G49970.1); similar to BTB/POZ; NPH3 [Medicago truncatula] (GB:ABE85753.1); similar to BTB/POZ; NPH3 [Medicago truncatula] (GB:ABE82531.1); contains InterPro domain NPH3; (InterPro:IPR004249); contains InterPro domain BTB; (InterPro:IPR000210); contains InterPro domain BTB/POZ; (InterPro:IPR013069)\\
## Solyc02g067050 & AT3G29240 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G33780.1); similar to Os10g0330400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064365.1); similar to Protein of unknown function DUF179 [Medicago truncatula] (GB:ABE94310.1); contains InterPro domain Protein of unknown function DUF179; (InterPro:IPR003774)\\
## \addlinespace
## Solyc02g077050 & AT5G45890 & Senescence-associated gene 12 (SAG12) encoding a cysteine protease influenced by cytokinin, auxin, and sugars.Localized to special vacuole found during senescence called senescence associated vacuoles which are different from central vacuole in the tonoplast composition and pH.\\
## Solyc02g077950 & NA & NA\\
## Solyc02g077960 & NA & NA\\
## Solyc02g080120 & AT4G21200 & Encodes a protein with gibberellin 2-oxidase activity which acts specifically on C-20 gibberellins.\\
## Solyc02g080510 & NA & NA\\
## \addlinespace
## Solyc02g080530 & AT4G21960 & Encodes AT4g21960 (AT4g21960/T8O5_170).\\
## Solyc02g082510 & AT4G38250 & amino acid transporter family protein; similar to amino acid transporter family protein [Arabidopsis thaliana] (TAIR:AT2G42005.1); similar to amino acid transport protein (GB:AAB82307.1); similar to OSIGBa0158F05.8 [Oryza sativa (indica cultivar-group)] (GB:CAH66759.1); similar to OSJNBa0017B10.14 [Oryza sativa (japonica cultivar-group)] (GB:CAE03099.2); contains InterPro domain Amino acid/polyamine transporter II; (InterPro:IPR002422); contains InterPro domain Amino acid transporter, transmembrane; (InterPro:IPR013057)\\
## Solyc02g083280 & NA & NA\\
## Solyc02g084570 & AT4G36220 & encodes ferulate 5-hydroxylase (F5H). Involved in lignin biosynthesis.\\
## Solyc02g084950 & AT4G36470 & S-adenosyl-L-methionine:carboxyl methyltransferase family protein; similar to JMT (JASMONIC ACID CARBOXYL METHYLTRANSFERASE), jasmonate O-methyltransferase [Arabidopsis thaliana] (TAIR:AT1G19640.1); similar to putative S-adenosyl-L-methionine:jasmonic acid carboxyl methyltransferase [Oryza sativa (japonica cultivar-group)] (GB:BAB64171.1); contains InterPro domain SAM dependent carboxyl methyltransferase; (InterPro:IPR005299)\\
## \addlinespace
## Solyc03g007760 & AT4G28000 & AAA-type ATPase family protein; similar to AAA-type ATPase family protein [Arabidopsis thaliana] (TAIR:AT1G64110.2); similar to ATP binding / nucleoside-triphosphatase/ nucleotide binding [Arabidopsis thaliana] (TAIR:AT5G52882.1); similar to AAA ATPase, central re (GB:ABE83074.1); similar to AAA ATPase, central re (GB:ABE87117.1); similar to AAA ATPase, central re (GB:ABE79750.1); contains InterPro domain AAA-protein subdomain; (InterPro:IPR003960); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc03g007870 & NA & NA\\
## Solyc03g019850 & AT5G40440 & encodes a mitogen-activated kinase kinase\\
## Solyc03g031800 & AT1G11545 & xyloglucan:xyloglucosyl transferase, putative / xyloglucan endotransglycosylase, putative / endo-xyloglucan transferase, putative; Identical to Probable xyloglucan endotransglucosylase/hydrolase protein 8 precursor (EC 2.4.1.207) (At-XTH8) (XTH-8) (XTH8) [Arabidopsis Thaliana] (GB:Q8L9A9;GB:Q9LPY1); similar to xyloglucan:xyloglucosyl transferase, putative / xyloglucan endotransglycosylase, putative / endo-xyloglucan transferase, putative [Arabidopsis thaliana] (TAIR:AT4G37800.1); similar to xyloglucan:xyloglucosyl transferase, putative / xyloglucan endotransglycosylase, putative / endo-xyloglucan transferase, putative [Arabidopsis thaliana] (TAIR:AT5G65730.1); similar to putative endoxyloglucan transferase [Oryza sativa (japonica cultivar-group)] (GB:BAC45142.1); contains InterPro domain Beta-glucanase; (InterPro:IPR008264); contains InterPro domain Glycoside hydrolase, family 16, active site; (InterPro:IPR008263); contains InterPro domain Concanavalin A-like lectin/glucanase, subgroup; (InterPro:IPR013320); contains InterPro domain Concanavalin A-like lectin/glucanase; (InterPro:IPR008985); contains InterPro domain Glycoside hydrolase, family 16; (InterPro:IPR000757); contains InterPro domain Xyloglucan endo-transglycosylase, C-terminal; (InterPro:IPR010713)\\
## Solyc03g062870 & NA & NA\\
## \addlinespace
## Solyc03g097920 & AT1G73500 & member of MAP Kinase Kinase\\
## Solyc04g007400 & AT5G06060 & tropinone reductase, putative / tropine dehydrogenase, putative; similar to tropinone reductase, putative / tropine dehydrogenase, putative [Arabidopsis thaliana] (TAIR:AT2G29290.1); similar to Tropinone reductase, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF95188.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc04g011540 & AT3G55470 & C2 domain-containing protein; similar to C2 domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G63220.1); similar to Os-FIERG2 gene product [Oryza sativa] (GB:AAC04628.1); contains InterPro domain C2; (InterPro:IPR000008); contains InterPro domain C2 calcium/lipid-binding region, CaLB; (InterPro:IPR008973)\\
## Solyc04g015020 & NA & NA\\
## Solyc04g017750 & NA & NA\\
## \addlinespace
## Solyc04g054910 & NA & NA\\
## Solyc04g078650 & AT1G46480 & homeobox-leucine zipper transcription factor family protein; Identical to WUSCHEL-related homeobox 4 (WOX4) [Arabidopsis Thaliana] (GB:Q6X7J9;GB:Q9C632); similar to transcription factor [Arabidopsis thaliana] (TAIR:AT3G18010.1); similar to Homeobox domain, putative [Medicago truncatula] (GB:ABE89615.1); contains InterPro domain Homeodomain-related; (InterPro:IPR012287); contains InterPro domain Homeobox; (InterPro:IPR001356); contains InterPro domain Homeodomain-like; (InterPro:IPR009057)\\
## Solyc04g080040 & NA & NA\\
## Solyc04g080700 & AT1G19660 & wound-responsive family protein; similar to wound-responsive protein-related [Arabidopsis thaliana] (TAIR:AT1G75380.3); similar to wound inducive gene [Nicotiana tabacum] (GB:BAA95791.1); contains domain no description (G3D.4.10.860.10)\\
## Solyc04g082140 & AT1G76160 & SKS5 (SKU5 Similar 5); copper ion binding / oxidoreductase; similar to SKS6 (SKU5 Similar 6), pectinesterase [Arabidopsis thaliana] (TAIR:AT1G41830.1); similar to SKS8 (SKU5 Similar 8), copper ion binding / oxidoreductase [Arabidopsis thaliana] (TAIR:AT1G21850.1); similar to SKS7 (SKU5 Similar 7), copper ion binding / oxidoreductase [Arabidopsis thaliana] (TAIR:AT1G21860.1); similar to pectinesterase [Solanum lycopersicum] (GB:CAB08077.1); similar to PS60 [Nicotiana tabacum] (GB:CAA65634.1); similar to Multicopper oxidase, type 1 [Medicago truncatula] (GB:ABE89109.1); contains InterPro domain Cupredoxin; (InterPro:IPR008972); contains InterPro domain Multicopper oxidase, type 3; (InterPro:IPR011707); contains InterPro domain Multicopper oxidase, type 2; (InterPro:IPR011706); contains InterPro domain Multicopper oxidase, type 1; (InterPro:IPR001117)\\
## \addlinespace
## Solyc05g005540 & AT1G70370 & BURP domain-containing protein / polygalacturonase, putative; Identical to Probable polygalacturonase non-catalytic subunit JP650 precursor (Aromatic-rich glycoprotein JP650) (JP650) [Arabidopsis Thaliana] (GB:P92990;GB:O64599;GB:Q8H7B8;GB:Q93ZQ4); similar to JP630, polygalacturonase [Arabidopsis thaliana] (TAIR:AT1G23760.1); similar to BURP domain-containing protein / polygalacturonase, putative [Arabidopsis thaliana] (TAIR:AT1G60390.1); similar to Polygalacturonase-1 non-catalytic subunit beta precursor (AroGP1) (Polygalacturonase converter) (PG converter) (GB:Q40161); similar to polygalacturonase isoenzyme 1 beta subunit homolog (GB:AAB39546.1); similar to Polygalacturonase non-catalytic subunit AroGP2 precursor (GB:P93217); contains InterPro domain BURP; (InterPro:IPR004873)\\
## Solyc05g006740 & AT1G10370 & ATGSTU17/ERD9/GST30/GST30B (EARLY-RESPONSIVE TO DEHYDRATION 9, GLUTATHIONE S-TRANSFERASE 30, GLUTATHIONE S-TRANSFERASE 30B); glutathione transferase; similar to ATGSTU18 (GLUTATHIONE S-TRANSFERASE 29), glutathione transferase [Arabidopsis thaliana] (TAIR:AT1G10360.1); similar to glutathione S-transferase 1 [Papaver somniferum] (GB:AAF22517.1); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Glutathione S-transferase, N-terminal; (InterPro:IPR004045); contains InterPro domain Glutathione S-transferase, C-terminal-like; (InterPro:IPR010987); contains InterPro domain Thioredoxin fold; (InterPro:IPR012335)\\
## Solyc05g007480 & NA & NA\\
## Solyc05g007980 & AT1G23090 & Encodes AST91 mRNA for sulfate transporter.\\
## Solyc05g009250 & NA & NA\\
## \addlinespace
## Solyc05g009520 & NA & NA\\
## Solyc05g009760 & NA & NA\\
## Solyc05g013860 & NA & NA\\
## Solyc05g051870 & NA & NA\\
## Solyc05g055940 & NA & NA\\
## \addlinespace
## Solyc06g007160 & AT2G29990 & NDA2 (ALTERNATIVE NAD(P)H DEHYDROGENASE 2); NADH dehydrogenase; similar to NDA1 (ALTERNATIVE NAD(P)H DEHYDROGENASE 1), NADH dehydrogenase [Arabidopsis thaliana] (TAIR:AT1G07180.1); similar to putative internal rotenone-insensitive NADH dehydrogenase [Solanum tuberosum] (GB:CAB52796.1); similar to Os07g0564500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060003.1); contains InterPro domain Pyridine nucleotide-disulphide oxidoreductase, NAD-binding region; (InterPro:IPR001327); contains InterPro domain FAD-dependent pyridine nucleotide-disulphide oxidoreductase; (InterPro:IPR013027)\\
## Solyc06g053440 & NA & NA\\
## Solyc06g059870 & NA & NA\\
## Solyc06g060620 & AT1G12110 & Encodes NRT1.1 (CHL1), a dual-affinity nitrate transporter. The protein is expressed in guard cells and function in stomatal opening. Mutants have less transpiration and are more tolerant to drought. Expressed in lateral roots. Involved in nitrate signaling which enables the plant root system to detect and exploit nitrate-rich soil patches. Comparing to the wild type, the mutant displays a strongly decreased lateral root proliferation phenotype in nitrate rich patches on growth medium.\\
## Solyc06g065970 & NA & NA\\
## \addlinespace
## Solyc06g068570 & AT1G16060 & ovule development protein, putative; similar to ovule development protein, putative [Arabidopsis thaliana] (TAIR:AT1G79700.2); similar to Pathogenesis-related transcriptional factor and ERF [Medicago truncatula] (GB:ABE94683.1); similar to Os09g0423800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063215.1); contains InterPro domain Pathogenesis-related transcriptional factor and ERF; (InterPro:IPR001471)\\
## Solyc06g068690 & AT5G07360 & amidase family protein; similar to glutamyl-tRNA(Gln) amidotransferase, putative [Arabidopsis thaliana] (TAIR:AT3G25660.1); similar to amidase-like protein [Nicotiana tabacum] (GB:BAC53930.1); similar to Amidase [Medicago truncatula] (GB:ABE85659.1); similar to amidase family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA94086.2); contains InterPro domain Amidase; (InterPro:IPR000120)\\
## Solyc06g069000 & NA & NA\\
## Solyc06g073730 & AT3G20770 & ethylene-insensitive3\\
## Solyc06g076140 & NA & NA\\
## \addlinespace
## Solyc07g006700 & AT4G25780 & pathogenesis-related protein, putative; similar to allergen V5/Tpx-1-related family protein [Arabidopsis thaliana] (TAIR:AT5G57625.1); similar to Allergen V5/Tpx-1 related [Medicago truncatula] (GB:ABE83411.1); contains InterPro domain Ves allergen; (InterPro:IPR002413); contains InterPro domain Allergen V5/Tpx-1 related; (InterPro:IPR001283)\\
## Solyc07g007280 & AT2G47910 & CRR6 (CHLORORESPIRATORY REDUCTION 6); similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE80941.1)\\
## Solyc07g008010 & NA & NA\\
## Solyc07g014640 & AT3G10700 & Encodes a GHMP kinase family protein. Based on gene trap line GT8007, the gene appears to be expressed in a petal and stamen-specific manner, between flower stages 8 to 11.\\
## Solyc07g049180 & AT3G21630 & protein kinase family protein; similar to protein kinase family protein / peptidoglycan-binding LysM domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G51940.1); similar to LysM domain-containing receptor-like kinase 7 [Medicago truncatula] (GB:AAQ73158.1); similar to Nod-factor receptor 1a [Lotus japonicus] (GB:CAE02589.1); similar to Nod-factor receptor 1b [Lotus japonicus] (GB:CAE02590.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Peptidoglycan-binding LysM; (InterPro:IPR002482)\\
## \addlinespace
## Solyc07g053020 & NA & NA\\
## Solyc07g053640 & NA & NA\\
## Solyc07g062850 & AT3G15180 & proteasome-related; similar to hypothetical protein [Trifolium pratense] (GB:BAE71213.1); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain HEAT; (InterPro:IPR000357)\\
## Solyc07g063820 & AT4G27290 & S-locus protein kinase, putative; similar to ARK1 (A. THALIANA RECEPTOR KINASE I), kinase [Arabidopsis thaliana] (TAIR:AT1G65790.1); similar to S-locus protein kinase, putative [Arabidopsis thaliana] (TAIR:AT4G27300.1); similar to ARK3 (Arabidopsis Receptor Kinase 3), kinase [Arabidopsis thaliana] (TAIR:AT4G21380.1); similar to Protein kinase; S-locus glycoprotein; Curculin-like (mannose-binding) lectin; Apple-like [Medicago truncatula] (GB:ABE82224.1); similar to receptor kinase 5 [Brassica rapa] (GB:BAB69683.1); similar to EGF-like, subtype 2; S-locus glycoprotein; Curculin-like (mannose-binding) lectin; Apple-like; Serine/threonine protein kinase, active site [Medicago truncatula] (GB:ABE86763.1); contains InterPro domain Apple-like; (InterPro:IPR003609); contains InterPro domain S-locus glycoprotein; (InterPro:IPR000858); contains InterPro domain Curculin-like (mannose-binding) lectin; (InterPro:IPR001480); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain PAN-like, type 2; (InterPro:IPR013227); contains InterPro domain EGF-like, type 3; (InterPro:IPR000742); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc08g005130 & AT5G16760 & Encodes a inositol 1,3,4-trisphosphate 5/6-kinase.\\
## \addlinespace
## Solyc08g005440 & NA & NA\\
## Solyc08g007640 & NA & NA\\
## Solyc08g007800 & AT4G22990 & SPX (SYG1/Pho81/XPR1) domain-containing protein; similar to SPX (SYG1/Pho81/XPR1) domain-containing protein [Arabidopsis thaliana] (TAIR:AT4G11810.1); similar to SPX (SYG1/Pho81/XPR1) domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G63010.4); similar to Beta-lactamase, class A; SPX, N-terminal; Major facilitator superfamily MFS_1 [Medicago truncatula] (GB:ABD28458.1); similar to SPX (SYG1/Pho81/XPR1) domain-containing protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD44792.1); similar to SPX, N-terminal; Major facilitator superfamily MFS_1 [Medicago truncatula] (GB:ABE83067.1); contains InterPro domain SPX, N-terminal; (InterPro:IPR004331); contains InterPro domain Major facilitator superfamily MFS_1; (InterPro:IPR011701)\\
## Solyc08g059700 & NA & NA\\
## Solyc08g061650 & NA & NA\\
## \addlinespace
## Solyc08g066610 & NA & NA\\
## Solyc08g066840 & AT2G25810 & TIP4;1 (tonoplast intrinsic protein 4;1); water channel; Identical to Aquaporin TIP4.1 (Tonoplast intrinsic protein 4.1) (Epsilon-tonoplast intrinsic protein) (Epsilon-TIP) (TIP4.1) [Arabidopsis Thaliana] (GB:O82316;GB:Q53XD1); similar to GAMMA-TIP (Tonoplast intrinsic protein (TIP) gamma), water channel [Arabidopsis thaliana] (TAIR:AT2G36830.1); similar to aquaglyceroporin; tonoplast intrinsic protein (TIPa) [Nicotiana tabacum] (GB:CAB40742.1); contains InterPro domain Aquaporin; (InterPro:IPR012269); contains InterPro domain Major intrinsic protein; (InterPro:IPR000425)\\
## Solyc08g066880 & AT4G28940 & catalytic; similar to phosphorylase family protein [Arabidopsis thaliana] (TAIR:AT4G24340.1); similar to Os05g0228000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054970.1); similar to Os01g0229800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042490.1); similar to putative bark storage protein [Oryza sativa (japonica cultivar-group)] (GB:BAA94780.1); contains InterPro domain Purine and other phosphorylases, family 1; (InterPro:IPR000845)\\
## Solyc08g067180 & NA & NA\\
## Solyc08g078950 & AT1G12110 & Encodes NRT1.1 (CHL1), a dual-affinity nitrate transporter. The protein is expressed in guard cells and function in stomatal opening. Mutants have less transpiration and are more tolerant to drought. Expressed in lateral roots. Involved in nitrate signaling which enables the plant root system to detect and exploit nitrate-rich soil patches. Comparing to the wild type, the mutant displays a strongly decreased lateral root proliferation phenotype in nitrate rich patches on growth medium.\\
## \addlinespace
## Solyc08g081370 & AT3G61460 & Encodes a novel ring finger protein and forms an N-terminal hydrophobic domain and a C-terminal RING-H2 signature. Expression is down regulated by brassinolide.\\
## Solyc09g007770 & AT3G53420 & a member of the plasma membrane intrinsic protein subfamily PIP2. localizes to the plasma membrane and exhibits water transport activity in Xenopus oocyte. expressed specifically in the vascular bundles and protein level increases slightly during leaf dev\\
## Solyc09g011080 & AT2G39730 & Rubisco activase, a nuclear-encoded chloroplast protein that consists of two isoforms arising from alternative splicing in most plants. Required for the light activation of rubisco.\\
## Solyc09g082980 & NA & NA\\
## Solyc09g083130 & AT4G14570 & acylaminoacyl-peptidase-related; similar to serine-type peptidase [Arabidopsis thaliana] (TAIR:AT5G36210.1); similar to Os10g0415600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064602.1); similar to prolyl oligopeptidase family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABB47613.1); similar to prolyl oligopeptidase family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABB47614.1); contains InterPro domain Peptidase S9, prolyl oligopeptidase active site region; (InterPro:IPR001375); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Terpenoid synthase; (InterPro:IPR008949)\\
## \addlinespace
## Solyc09g091260 & AT5G63930 & leucine-rich repeat transmembrane protein kinase, putative; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT2G33170.1); similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT1G34110.1); similar to leucine-rich repeat family protein / protein kinase family protein [Arabidopsis thaliana] (TAIR:AT1G17230.1); similar to Leucine Rich Repeat family protein [Solanum demissum] (GB:AAT40539.2); similar to Receptor-like protein kinase precursor (GB:P93194); similar to putative LRR receptor-like kinase [Oryza sativa (japonica cultivar-group)] (GB:BAC84715.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc10g017630 & AT2G45660 & Controls flowering and is required for CO to promote flowering. It acts downstream of FT. Overexpression of (SOC1) AGL20 suppresses not only the late flowering of plants that have functional FRI and FLC alleles but also the delayed phase transitions during the vegetative stages of\\
## Solyc10g039290 & NA & NA\\
## Solyc10g078580 & NA & NA\\
## Solyc10g079620 & AT2G41250 & haloacid dehalogenase-like hydrolase family protein; similar to haloacid dehalogenase-like hydrolase family protein [Arabidopsis thaliana] (TAIR:AT1G14310.1); similar to Haloacid dehalogenase/epoxide hydrolase [Medicago truncatula] (GB:ABE94184.1); contains InterPro domain HAD-superfamily subfamily IA hydrolase, REG-2-like; (InterPro:IPR011949); contains InterPro domain HAD-superfamily hydrolase, subfamily IA, variant 1; (InterPro:IPR006439); contains InterPro domain Haloacid dehalogenase-like hydrolase; (InterPro:IPR005834); contains InterPro domain Haloacid dehalogenase/epoxide hydrolase; (InterPro:IPR005833)\\
## \addlinespace
## Solyc10g084320 & NA & NA\\
## Solyc10g086570 & AT5G02160 & similar to hypothetical protein [Solanum lycopersicum] (GB:BAD95796.1)\\
## Solyc11g006110 & AT2G36970 & UDP-glucoronosyl/UDP-glucosyl transferase family protein; similar to glycosyltransferase family protein [Arabidopsis thaliana] (TAIR:AT2G28080.1); similar to UDP-glucuronosyl/UDP-glucosyltransferase [Medicago truncatula] (GB:ABE87217.1); similar to Os10g0442300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064696.1); contains InterPro domain UDP-glucuronosyl/UDP-glucosyltransferase; (InterPro:IPR002213)\\
## Solyc11g008480 & AT3G05410 & similar to hypothetical protein MtrDRAFT_AC161241g13v1 [Medicago truncatula] (GB:ABE86659.1)\\
## Solyc11g011920 & AT5G17330 & Encodes one of two isoforms of glutamate decarboxylase.\\
## \addlinespace
## Solyc11g067270 & NA & NA\\
## Solyc11g071620 & AT2G27150 & Encodes the aldehyde oxidase delta isoform catalyzing the final step in abscisic acid biosynthesis.\\
## Solyc11g072500 & NA & NA\\
## Solyc12g005220 & AT4G27100 & RAB GTPase activator; similar to RAB GTPase activator [Arabidopsis thaliana] (TAIR:AT5G54780.1); similar to TBC domain, putative [Medicago truncatula] (GB:ABE91156.1); contains InterPro domain RabGAP/TBC; (InterPro:IPR000195)\\
## Solyc12g005350 & AT4G27250 & dihydroflavonol 4-reductase family / dihydrokaempferol 4-reductase family; similar to DFR (DIHYDROFLAVONOL 4-REDUCTASE), dihydrokaempferol 4-reductase [Arabidopsis thaliana] (TAIR:AT5G42800.1); similar to Os06g0683100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058386.1); similar to anthocyanidin reductase [Ginkgo biloba] (GB:AAU95082.1); contains InterPro domain NAD-dependent epimerase/dehydratase; (InterPro:IPR001509)\\
## \addlinespace
## Solyc12g008600 & AT4G29310 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G10020.1); similar to Protein of unknown function DUF1005 [Medicago truncatula] (GB:ABE84852.1); contains InterPro domain Protein of unknown function DUF1005; (InterPro:IPR010410)\\
## Solyc12g014310 & AT1G78780 & pathogenesis-related family protein; similar to pathogenesis-related protein-like protein [Medicago truncatula] (GB:ABE85366.1); contains domain NTF2-like (SSF54427)\\
## Solyc12g019550 & NA & NA\\
## Solyc12g027760 & NA & NA\\
## Solyc12g042600 & AT2G36770 & UDP-glucoronosyl/UDP-glucosyl transferase family protein; similar to UDP-glucoronosyl/UDP-glucosyl transferase family protein [Arabidopsis thaliana] (TAIR:AT2G36780.1); similar to DOGT1 (DON-GLUCOSYLTRANSFERASE), UDP-glycosyltransferase/ transferase, transferring glycosyl groups [Arabidopsis thaliana] (TAIR:AT2G36800.1); similar to UGT73C2 (UDP-glucosyl transferase 73C2), UDP-glycosyltransferase/ transferase, transferring glycosyl groups / transferase, transferring hexosyl groups [Arabidopsis thaliana] (TAIR:AT2G36760.1); similar to glucosyltransferase NTGT4 [Nicotiana tabacum] (GB:BAD93688.1); contains InterPro domain UDP-glucuronosyl/UDP-glucosyltransferase; (InterPro:IPR002213)\\
## \bottomrule
## \end{tabular}Cluster 21
Same as Cluster 20, It is low in the marginal blastozone regions.
clusterVis(21)## Using gene as id variables
clusterVis_PCA(21)
clusterVis_line(21)## Using gene, curated as id variables
#clusterGO(21)
y <- genesInClust(21, data.val2, annotation) ## [1] 107kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g227860 & AT2G22590 & glycosyltransferase family protein; similar to UDP-glucoronosyl/UDP-glucosyl transferase family protein [Arabidopsis thaliana] (TAIR:AT5G65550.1); similar to putative anthocyanidine rhamnosyl-transferase [Capsicum annuum] (GB:AAM12787.1); contains InterPro domain UDP-glucuronosyl/UDP-glucosyltransferase; (InterPro:IPR002213)\\
## Solyc01g005000 & AT2G02010 & glutamate decarboxylase, putative; similar to GAD (Glutamate decarboxylase 1), calmodulin binding [Arabidopsis thaliana] (TAIR:AT5G17330.1); similar to glutamate decarboxylase, putative [Arabidopsis thaliana] (TAIR:AT3G17760.1); similar to glutamate decarboxylase, putative [Arabidopsis thaliana] (TAIR:AT2G02000.1); similar to glutamate decarboxylase 4b [Brassica juncea] (GB:AAS79671.1); similar to glutamate decarboxylase 4a [Brassica juncea] (GB:AAS79670.1); similar to glutamate decarboxylase isozyme 1 [Nicotiana tabacum] (GB:AAC24195.1); contains InterPro domain Glutamate decarboxylase; (InterPro:IPR010107); contains InterPro domain Pyridoxal-dependent decarboxylase; (InterPro:IPR002129)\\
## Solyc01g005130 & NA & NA\\
## Solyc01g009910 & AT5G14070 & glutaredoxin family protein; Identical to Glutaredoxin-C8 (AtGrxC8) (GRXC8) [Arabidopsis Thaliana] (GB:Q8LF89;GB:Q9FMU3); similar to ROXY1, thiol-disulfide exchange intermediate [Arabidopsis thaliana] (TAIR:AT3G02000.1); similar to glutaredoxin family protein [Musa acuminata] (GB:ABF69994.1); similar to Os04g0393500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052649.1); similar to Os02g0512400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046942.1); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Glutaredoxin; (InterPro:IPR002109); contains InterPro domain Thioredoxin fold; (InterPro:IPR012335); contains InterPro domain Glutaredoxin-like, plant II; (InterPro:IPR011905)\\
## Solyc01g049690 & AT2G32080 & similar to the conserved animal nuclear protein PUR alpha which was implicated in the control of gene transcription and DNA replication\\
## \addlinespace
## Solyc01g058320 & NA & NA\\
## Solyc01g080010 & AT1G03220 & extracellular dermal glycoprotein, putative / EDGP, putative; similar to extracellular dermal glycoprotein, putative / EDGP, putative [Arabidopsis thaliana] (TAIR:AT1G03230.1); similar to putative xyloglucanase inhibitor [Solanum tuberosum] (GB:AAP84703.1); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007)\\
## Solyc01g080790 & AT2G15220 & secretory protein, putative; similar to plant basic secretory protein (BSP) family protein [Arabidopsis thaliana] (TAIR:AT2G15130.1); similar to NtPRp27 [Nicotiana tabacum] (GB:BAA81904.1); contains InterPro domain Plant Basic Secretory Protein; (InterPro:IPR007541)\\
## Solyc01g087000 & NA & NA\\
## Solyc01g090410 & AT3G60340 & palmitoyl protein thioesterase family protein; similar to palmitoyl protein thioesterase family protein [Arabidopsis thaliana] (TAIR:AT5G47330.1); similar to putative palmitoyl-protein thioesterase [Tropaeolum majus] (GB:AAR92492.1); contains InterPro domain Palmitoyl protein thioesterase; (InterPro:IPR002472)\\
## \addlinespace
## Solyc01g090560 & NA & NA\\
## Solyc01g103140 & AT5G49890 & member of Anion channel protein family\\
## Solyc01g106800 & AT5G49630 & Is a high affinity amino acid transporter capable of transporting aspartate and tryptophan. May be involved in the amino acid uptake from xylem.\\
## Solyc02g014110 & NA & NA\\
## Solyc02g021040 & NA & NA\\
## \addlinespace
## Solyc02g030230 & AT1G30620 & encodes a type-II membrane protein that catalyzes 4-epimerization of UDP-D-Xylose to UDP-L-Arabinose in vitro, the nucleotide sugar used by glycosyltransferases in the arabinosylation of cell wall polysaccharides and wall-resident proteoglycans.\\
## Solyc02g032660 & AT3G21690 & MATE efflux family protein; similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G11670.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G61890.1); similar to MATE efflux family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97209.1); similar to MATE efflux family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97220.1); similar to putative MATE efflux family protein [Oryza sativa (japonica cultivar-group)] (GB:AAS01962.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## Solyc02g032940 & AT1G11910 & aspartyl protease family protein; similar to pepsin A [Arabidopsis thaliana] (TAIR:AT1G62290.2); similar to aspartyl protease family protein [Arabidopsis thaliana] (TAIR:AT4G04460.1); similar to aspartic protease (GB:AAB03108.1); similar to Aspartic proteinase precursor (GB:O04057); similar to aspartic proteinase [Theobroma cacao] (GB:CAC86004.1); contains InterPro domain Saposin-like; (InterPro:IPR011001); contains InterPro domain Saposin B subdomain; (InterPro:IPR008140); contains InterPro domain Peptidase A1, pepsin; (InterPro:IPR001461); contains InterPro domain Saposin B; (InterPro:IPR008139); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007); contains InterPro domain Saposin-like type B, 2; (InterPro:IPR008138); contains InterPro domain Peptidase aspartic, active site; (InterPro:IPR001969); contains InterPro domain Saposin; (InterPro:IPR008373); contains InterPro domain Saposin-like type B, 1; (InterPro:IPR007856)\\
## Solyc02g065020 & NA & NA\\
## Solyc02g069800 & NA & NA\\
## \addlinespace
## Solyc02g078760 & NA & NA\\
## Solyc02g081270 & NA & NA\\
## Solyc02g082420 & NA & NA\\
## Solyc02g083190 & NA & NA\\
## Solyc02g083410 & NA & NA\\
## \addlinespace
## Solyc02g085480 & NA & NA\\
## Solyc02g086110 & NA & NA\\
## Solyc02g086480 & NA & NA\\
## Solyc02g087000 & AT5G14880 & potassium transporter, putative; Identical to Potassium transporter 8 (AtPOT8) (AtHAK8) (POT8) [Arabidopsis Thaliana] (GB:Q9M7J9;GB:Q9LEQ2); similar to KT2 (POTASSIUM TRANSPORTER 2) [Arabidopsis thaliana] (TAIR:AT2G40540.2); similar to KUP3 (K+ uptake permease 3), potassium ion transporter [Arabidopsis thaliana] (TAIR:AT3G02050.1); similar to KUP6 (K+ uptake permease 6), potassium ion transporter [Arabidopsis thaliana] (TAIR:AT1G70300.1); similar to putative potassium transporter HAK1p [Mesembryanthemum crystallinum] (GB:AAK53758.1); similar to putative high-affinity potassium transporter protein 1 [Nicotiana tabacum] (GB:ABI14646.1); similar to putative high-affinity potassium transporter protein [Phytolacca acinosa] (GB:AAX13997.1); contains InterPro domain K+ potassium transporter; (InterPro:IPR003855)\\
## Solyc02g087060 & AT3G28050 & nodulin MtN21 family protein; similar to nodulin MtN21 family protein [Arabidopsis thaliana] (TAIR:AT5G40240.1); similar to Protein of unknown function DUF6, transmembrane [Medicago truncatula] (GB:ABE93902.1); contains InterPro domain Protein of unknown function DUF6, transmembrane; (InterPro:IPR000620)\\
## \addlinespace
## Solyc02g087800 & AT5G15140 & aldose 1-epimerase family protein; similar to aldose 1-epimerase family protein [Arabidopsis thaliana] (TAIR:AT3G01260.1); similar to Galactose mutarotase-like [Medicago truncatula] (GB:ABE81353.1); contains InterPro domain Galactose mutarotase-like; (InterPro:IPR011013); contains InterPro domain Aldose 1-epimerase; (InterPro:IPR008183)\\
## Solyc02g089790 & NA & NA\\
## Solyc02g092240 & NA & NA\\
## Solyc02g093180 & NA & NA\\
## Solyc03g005330 & NA & NA\\
## \addlinespace
## Solyc03g005820 & NA & NA\\
## Solyc03g034070 & AT3G50685 & similar to p-166-4_1 [Pinus resinosa] (GB:AAY17046.1); similar to Os10g0213700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064326.1)\\
## Solyc03g082640 & AT2G46620 & AAA-type ATPase family protein; similar to AAA-type ATPase family protein [Arabidopsis thaliana] (TAIR:AT3G28580.1); similar to AAA ATPase [Medicago truncatula] (GB:ABE93512.1); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc03g082890 & AT5G53490 & thylakoid lumenal 17.4 kDa protein, chloroplast, identical to SP:P81760 Thylakoid lumenal 17.4 kDa protein, chloroplast precursor (P17.4) {Arabidopsis thaliana}. Putative pentapeptide protein.\\
## Solyc03g096260 & AT2G40110 & yippee family protein; similar to yippee family protein [Arabidopsis thaliana] (TAIR:AT3G08990.1); similar to Protein yippee-like (GB:P59234); contains InterPro domain Yippee-like protein; (InterPro:IPR004910)\\
## \addlinespace
## Solyc03g116320 & NA & NA\\
## Solyc04g007390 & AT1G25390 & protein kinase family protein; similar to serine/threonine protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G38210.1); similar to wall-associated kinase 4-like [Oryza sativa (japonica cultivar-group)] (GB:BAD82478.1); similar to Os01g0136400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001041957.1); similar to Os05g0550800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056244.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc04g018200 & NA & NA\\
## Solyc04g024430 & AT1G27290 & similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE92577.1); contains InterPro domain Penicillin-binding protein, transpeptidase fold; (InterPro:IPR012338)\\
## Solyc04g055210 & AT5G10240 & Encodes asparagine synthetase (ASN3).\\
## \addlinespace
## Solyc04g063390 & AT1G77020 & DNAJ heat shock N-terminal domain-containing protein; similar to DNAJ heat shock N-terminal domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G76700.1); similar to Os09g0493800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063548.1); similar to DnaJ-like protein [Brassica juncea] (GB:AAW50121.1); similar to Os02g0555700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047124.1); contains InterPro domain Heat shock protein DnaJ; (InterPro:IPR003095); contains InterPro domain Heat shock protein DnaJ, N-terminal; (InterPro:IPR001623)\\
## Solyc04g078250 & AT1G47240 & Member of the NRAMP2 gene family of metal ion transporters.\\
## Solyc05g005090 & AT1G23380 & homeodomain transcription factor KNAT6, belonging to class I of KN transcription factor family (which also includes KNAT1 and KNAT2). Expression is increased in as and bop1 leaf mutants.\\
## Solyc05g006210 & AT3G24330 & glycosyl hydrolase family 17 protein; similar to glycosyl hydrolase family 17 protein [Arabidopsis thaliana] (TAIR:AT3G04010.1); similar to glycosyl hydrolase family 17 protein [Arabidopsis thaliana] (TAIR:AT2G19440.1); similar to putative 3-glucanase [Zea mays] (GB:AAT42176.1); contains InterPro domain X8; (InterPro:IPR012946); contains InterPro domain Glycoside hydrolase, family 17; (InterPro:IPR000490)\\
## Solyc05g011850 & AT3G45070 & sulfotransferase family protein; similar to sulfotransferase family protein [Arabidopsis thaliana] (TAIR:AT3G45080.1); similar to Sulfotransferase [Medicago truncatula] (GB:ABE89261.1); contains InterPro domain Sulfotransferase; (InterPro:IPR000863)\\
## \addlinespace
## Solyc05g015470 & NA & NA\\
## Solyc05g016390 & NA & NA\\
## Solyc05g053060 & NA & NA\\
## Solyc06g007600 & NA & NA\\
## Solyc06g035920 & AT3G48940 & remorin family protein; similar to remorin family protein [Arabidopsis thaliana] (TAIR:AT5G23750.1); similar to Remorin (pp34) (GB:P93788); contains InterPro domain Remorin, N-terminal region; (InterPro:IPR005518); contains InterPro domain Remorin, C-terminal region; (InterPro:IPR005516)\\
## \addlinespace
## Solyc06g051750 & AT5G05690 & Encodes a member of the CP90A family, a cytochrome P450 monooxygenase which converts 6-deoxocathasterone to 6-deoxoteasterone in the late C6 oxidation pathway and cathasterone to teasterone in the early C6 oxidation pathway of brassinolide biosynthesis. Expressed in cotyledons and leaves. Mutants display de-etiolation and derepression of light-induced genes in the dark, dwarfism, male sterility and activation of stress-regulated genes in the light. The expression of the gene using a CPD promoter:LUC fusion construct was shown to be under circadian and light control. Additionally, the circadian regulation was shown to be independent of BR levels as it remains unchanged in <i>bri1</i> mutant lines.\\
## Solyc06g063300 & NA & NA\\
## Solyc06g066370 & NA & NA\\
## Solyc06g070970 & NA & NA\\
## Solyc06g073880 & NA & NA\\
## \addlinespace
## Solyc06g075600 & AT1G07710 & ankyrin repeat family protein; similar to ankyrin repeat family protein [Arabidopsis thaliana] (TAIR:AT5G60070.1); similar to Os03g0281100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049741.1); similar to Ankyrin [Medicago truncatula] (GB:ABE80012.1); similar to Ankyrin [Medicago truncatula] (GB:ABE93792.1); contains InterPro domain Ankyrin; (InterPro:IPR002110)\\
## Solyc06g076570 & AT1G07400 & 17.8 kDa class I heat shock protein (HSP17.8-CI); similar to 17.6 kDa class I heat shock protein (HSP17.6A-CI) [Arabidopsis thaliana] (TAIR:AT1G59860.1); similar to 17.5 kDa class I heat shock protein [Carica papaya] (GB:AAR25848.1); contains InterPro domain HSP20-like chaperone; (InterPro:IPR008978); contains InterPro domain Heat shock protein Hsp20; (InterPro:IPR002068)\\
## Solyc06g082920 & AT5G48380 & leucine-rich repeat family protein / protein kinase family protein; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT1G27190.1); similar to Os05g0414700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055553.1); similar to receptor-like protein kinase [Oryza sativa (japonica cultivar-group)] (GB:AAX95167.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc07g005490 & NA & NA\\
## Solyc07g006370 & NA & NA\\
## \addlinespace
## Solyc07g006890 & NA & NA\\
## Solyc07g007170 & NA & NA\\
## Solyc07g044980 & AT5G45110 & Encodes a paralog of NPR1. Involved in negative regulation of defense responses against bacterial and oomycete pathogens. npr3 mutants has elevated level of PR1 expression. Interacts with TGA2, TGA3, TGA5 and TGA6 in yeast two hybrid assays.\\
## Solyc07g054950 & NA & NA\\
## Solyc07g062530 & AT3G14940 & One of four genes encoding phosphoenolpyruvate carboxylase, its mRNA is most abundantly expressed in roots and siliques.\\
## \addlinespace
## Solyc07g065250 & AT5G55560 & protein kinase family protein; similar to WNK3 (Arabidopsis WNK kinase 3), kinase [Arabidopsis thaliana] (TAIR:AT3G48260.1); similar to Protein kinase [Medicago truncatula] (GB:ABE81462.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719)\\
## Solyc07g066480 & AT1G16540 & Encodes molybdenum cofactor sulfurase. Involved in Moco biosynthesis. Involved in the conversion of ABA-aldehyde to ABA, the last step of abscisic acid (ABA) biosynthesis. <i>sir</i> loss-of-function mutants are resistant to sirtinol, a modulator of auxin signaling.N terminal domain is similar to bacterial NifS suggesting a common mechanism for sulphur mobilization and transfer.\\
## Solyc08g005650 & NA & NA\\
## Solyc08g006500 & AT2G29120 & member of Putative ligand-gated ion channel subunit family\\
## Solyc08g007240 & AT5G47240 & ATNUDT8 (Arabidopsis thaliana Nudix hydrolase homolog 8); hydrolase; Identical to Nudix hydrolase 8 (EC 3.6.1.-) (AtNUDT8) (NUDT8) [Arabidopsis Thaliana] (GB:Q8L7W2;GB:Q8LAJ0;GB:Q9LVT5); similar to ATNUDT2 (Arabidopsis thaliana Nudix hydrolase homolog 2), ADP-ribose diphosphatase/ NAD binding / hydrolase [Arabidopsis thaliana] (TAIR:AT5G47650.1); similar to hydrolase, NUDIX family protein [Brassica oleracea] (GB:ABD64957.1); contains InterPro domain NUDIX hydrolase; (InterPro:IPR000086); contains InterPro domain Anti-sense to fibroblast growth factor protein GFG; (InterPro:IPR003293)\\
## \addlinespace
## Solyc08g013980 & NA & NA\\
## Solyc08g016600 & NA & NA\\
## Solyc08g063000 & AT2G19480 & NAP1;2 (NUCLEOSOME ASSEMBLY PROTEIN1;2); DNA binding; similar to NAP1,3 (NUCLEOSOME ASSEMBLY PROTEIN1,3), DNA binding [Arabidopsis thaliana] (TAIR:AT5G56950.1); similar to nucleosome assembly protein I-like protein; similar to mouse nap I, PIR Accession Number JS0707 (GB:AAA50234.1); contains InterPro domain Spectrin repeat; (InterPro:IPR002017); contains InterPro domain Nucleosome assembly protein (NAP); (InterPro:IPR002164)\\
## Solyc08g067000 & NA & NA\\
## Solyc08g078850 & AT4G17260 & L-lactate dehydrogenase, putative; similar to PMDH1 (PEROXISOMAL NAD-MALATE DEHYDROGENASE 1), malate dehydrogenase [Arabidopsis thaliana] (TAIR:AT2G22780.1); similar to PMDH2 (PEROXISOMAL NAD-MALATE DEHYDROGENASE 2) [Arabidopsis thaliana] (TAIR:AT5G09660.2); similar to L-lactate dehydrogenase, putative [Brassica oleracea] (GB:ABD65114.1); contains InterPro domain NAD-binding site; (InterPro:IPR000205); contains InterPro domain L-lactate dehydrogenase; (InterPro:IPR011304); contains InterPro domain Lactate/malate dehydrogenase; (InterPro:IPR001236); contains InterPro domain L-lactate/malate dehydrogenase; (InterPro:IPR001557)\\
## \addlinespace
## Solyc08g078900 & NA & NA\\
## Solyc09g011660 & AT3G53990 & universal stress protein (USP) family protein; similar to universal stress protein (USP) family protein / early nodulin ENOD18 family protein [Arabidopsis thaliana] (TAIR:AT3G03270.2); similar to ENOD18 protein [Vicia faba] (GB:CAC18558.1); contains InterPro domain Universal stress protein (Usp); (InterPro:IPR006015); contains InterPro domain UspA; (InterPro:IPR006016)\\
## Solyc09g011750 & AT5G59010 & ATP binding / binding / protein kinase; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT3G54030.1); similar to TPR-containing protein kinase [Glycine max] (GB:AAX61123.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc09g014350 & AT2G38110 & Encodes a protein with glycerol-3-phosphate acyltransferase activity.\\
## Solyc09g065040 & NA & NA\\
## \addlinespace
## Solyc09g065850 & AT5G43700 & Auxin inducible protein similar to transcription factors.\\
## Solyc09g066210 & AT4G03030 & kelch repeat-containing F-box family protein; similar to kelch repeat-containing F-box family protein [Arabidopsis thaliana] (TAIR:AT3G63220.2); similar to OR23peptide (GB:AAA79706.1); contains InterPro domain Cyclin-like F-box; (InterPro:IPR001810); contains InterPro domain Galactose oxidase, central; (InterPro:IPR011043); contains InterPro domain Kelch repeat; (InterPro:IPR006652)\\
## Solyc09g074430 & AT1G48910 & flavin-containing monooxygenase family protein / FMO family protein; similar to flavin-containing monooxygenase family protein / FMO family protein [Arabidopsis thaliana] (TAIR:AT1G21430.1); similar to Os12g0189500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066335.1); similar to hypothetical protein, similar to flavin-containing monooxygenases [Oryza sativa] (GB:AAF34433.1); contains InterPro domain Pyridine nucleotide-disulphide oxidoreductase, NAD-binding region; (InterPro:IPR001327); contains InterPro domain Flavin-containing monooxygenase FMO; (InterPro:IPR000960); contains InterPro domain Monooxygenase, FAD-binding; (InterPro:IPR002938); contains InterPro domain Pyridine nucleotide-disulphide oxidoreductase, class-II; (InterPro:IPR000103); contains InterPro domain FAD-dependent pyridine nucleotide-disulphide oxidoreductase; (InterPro:IPR013027)\\
## Solyc09g082630 & AT5G43850 & ATARD4; acireductone dioxygenase (Fe2+-requiring)/ metal ion binding; Identical to 1,2-dihydroxy-3-keto-5-methylthiopentene dioxygenase 4 (EC 1.13.-.-) (Aci-reductone dioxygenase 4) (ARD4) [Arabidopsis Thaliana] (GB:Q8H185;GB:Q8LCE2;GB:Q9FG79); similar to ATARD2, metal ion binding [Arabidopsis thaliana] (TAIR:AT4G14710.2); similar to ARD-like protein [Brassica juncea] (GB:AAR03591.1); contains InterPro domain Cupin, RmlC-type; (InterPro:IPR011051); contains InterPro domain Cupin region; (InterPro:IPR007113); contains InterPro domain Acireductone dioxygenase, ARD; (InterPro:IPR004313)\\
## Solyc10g008640 & AT2G20900 & diacylglycerol kinase, putative; similar to diacylglycerol kinase accessory domain-containing protein [Arabidopsis thaliana] (TAIR:AT4G28130.1); similar to calmodulin-binding diacylglycerol kinase [Lycopersicon esculentum] (GB:AAG23128.1); similar to diacylglycerol kinase variant A [Lycopersicon esculentum] (GB:AAG23130.1); similar to diacylglycerol kinase variant B [Lycopersicon esculentum] (GB:AAG23131.1); contains InterPro domain Diacylglycerol kinase accessory region; (InterPro:IPR000756); contains InterPro domain Diacylglycerol kinase, catalytic region; (InterPro:IPR001206)\\
## \addlinespace
## Solyc10g009210 & AT2G18750 & calmodulin binding; similar to calmodulin-binding protein [Arabidopsis thaliana] (TAIR:AT5G57580.1); similar to calmodulin-binding protein [Arabidopsis thaliana] (TAIR:AT4G25800.2); similar to calmodulin-binding protein (GB:AAB37246.1); similar to Os02g0177800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046071.1); similar to Os04g0444200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052891.1); contains InterPro domain Calmodulin binding protein-like; (InterPro:IPR012416)\\
## Solyc10g081560 & AT5G06060 & tropinone reductase, putative / tropine dehydrogenase, putative; similar to tropinone reductase, putative / tropine dehydrogenase, putative [Arabidopsis thaliana] (TAIR:AT2G29290.1); similar to Tropinone reductase, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF95188.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc10g081810 & AT3G11780 & MD-2-related lipid recognition domain-containing protein / ML domain-containing protein; similar to MD-2-related lipid recognition domain-containing protein / ML domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G06480.1); similar to Os03g0788200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051500.1); similar to putative ML domain protein [Nicotiana glauca] (GB:CAH69231.1); similar to Os07g0159800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058934.1); contains InterPro domain E1 protein and Def2/Der2 allergen; (InterPro:IPR003172)\\
## Solyc10g083140 & NA & NA\\
## Solyc10g085420 & AT5G01750 & Identical to Protein At5g01750 [Arabidopsis Thaliana] (GB:Q9LZX1;GB:Q8LEK9); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G11740.1); similar to Protein of unknown function DUF567 [Medicago truncatula] (GB:ABE88870.1); contains InterPro domain Protein of unknown function DUF567; (InterPro:IPR007612)\\
## \addlinespace
## Solyc10g086280 & NA & NA\\
## Solyc11g006360 & AT3G19990 & binding; similar to hypothetical protein BB0394 [Bordetella bronchiseptica RB50] (GB:NP_886943.1); similar to Os02g0828500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048601.1); similar to Os02g0828200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048598.1); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc11g006870 & AT5G19570 & similar to Os05g0188300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054840.1); similar to hypothetical protein DDB_0232155 [Dictyostelium discoideum AX4] (GB:XP_642584.1)\\
## Solyc11g013890 & NA & NA\\
## Solyc11g040330 & AT4G38650 & glycosyl hydrolase family 10 protein; similar to glycosyl hydrolase family 10 protein [Arabidopsis thaliana] (TAIR:AT4G38300.1); similar to Glycosyl hydrolase family 10 protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF94920.1); similar to Glycosyl hydrolase family 10 protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF94921.1); contains InterPro domain Glycoside hydrolase, family 10; (InterPro:IPR001000); contains InterPro domain Galactose-binding like; (InterPro:IPR008979)\\
## \addlinespace
## Solyc11g062380 & NA & NA\\
## Solyc11g068360 & NA & NA\\
## Solyc11g069240 & NA & NA\\
## Solyc11g071430 & NA & NA\\
## Solyc11g072580 & AT3G45650 & proton-dependent oligopeptide transport (POT) family protein; similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT3G45680.1); similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT3G45660.1); similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT3G45710.1); similar to Major Facilitator Superfamily protein [Solanum demissum] (GB:AAT39312.2); contains InterPro domain TGF-beta receptor, type I/II extracellular region; (InterPro:IPR000109)\\
## \addlinespace
## Solyc12g006140 & AT2G05100 & Lhcb2.1 protein encoding a subunit of the light harvesting complex II. Member of a gene family with high degree of sequence similarity. Initially LHCB2.3 was considered as a separate gene but appears to be an allele of LHCB2.1.\\
## Solyc12g036140 & AT1G30410 & member of MRP subfamily\\
## \bottomrule
## \end{tabular}Cluster 22
similar pattern as 20 and 21
clusterVis(22)## Using gene as id variables
clusterVis_PCA(22)
clusterVis_line(22)## Using gene, curated as id variables
#clusterGO(22)
y <- genesInClust(22, data.val2, annotation) ## [1] 64kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc01g008920 & NA & NA\\
## Solyc01g095010 & AT2G46090 & Encodes a putative sphingosine kinase (SphK) containing the five conserved domains (C1-C5) previously identified in SphKs.\\
## Solyc01g095360 & NA & NA\\
## Solyc01g102990 & AT5G49840 & ATP-dependent Clp protease ATP-binding subunit ClpX, putative; similar to ATP-dependent Clp protease ATP-binding subunit ClpX, putative [Arabidopsis thaliana] (TAIR:AT1G33360.1); similar to putative ATP-dependent Clp protease ATP-binding subunit ClpX1 (CLPX) [Oryza sativa (japonica cultivar-group)] (GB:BAD15818.1); contains InterPro domain ATPase AAA-2; (InterPro:IPR013093); contains InterPro domain ClpX, ATPase regulatory subunit; (InterPro:IPR004487); contains InterPro domain AAA ATPase; (InterPro:IPR003593)\\
## Solyc02g011740 & NA & NA\\
## \addlinespace
## Solyc02g014740 & NA & NA\\
## Solyc02g014750 & NA & NA\\
## Solyc02g031710 & NA & NA\\
## Solyc02g069980 & NA & NA\\
## Solyc02g081220 & NA & NA\\
## \addlinespace
## Solyc02g091080 & AT2G04040 & AtDTX1 (At2g04040) has been identified as a detoxifying efflux carrier for plant-derived antibiotics and other toxic compounds, including CD2+.\\
## Solyc02g091680 & AT5G10560 & glycosyl hydrolase family 3 protein; similar to XYL4 (beta-xylosidase 4), hydrolase, hydrolyzing O-glycosyl compounds [Arabidopsis thaliana] (TAIR:AT5G64570.1); similar to BXL3 (BETA-XYLOSIDASE 3), hydrolase, hydrolyzing O-glycosyl compounds [Arabidopsis thaliana] (TAIR:AT5G09730.1); similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT1G78060.1); similar to Glycosyl hydrolase family 3 C terminal domain, putative [Oryza sativa (japonica cultivar-group)] (GB:AAX96800.1); similar to beta-D-xylosidase [Oryza sativa (japonica cultivar-group)] (GB:AAX92971.1); similar to beta-D-xylosidase [Hordeum vulgare] (GB:AAK38482.1); contains InterPro domain Glycoside hydrolase, family 3, C-terminal; (InterPro:IPR002772); contains InterPro domain Glycoside hydrolase, family 3, N-terminal; (InterPro:IPR001764)\\
## Solyc03g032010 & AT1G76490 & Encodes a 3-hydroxy-3-methylglutaryl coenzyme A reductase, which is involved in melavonate biosynthesis and performs the first committed step in isoprenoid biosynthesis. Expression is activated in dark in leaf tissue but not controlled by light in the root (confine\\
## Solyc03g077910 & AT5G39990 & glycosyltransferase family 14 protein / core-2/I-branching enzyme family protein; similar to glycosyltransferase family 14 protein / core-2/I-branching enzyme family protein [Arabidopsis thaliana] (TAIR:AT5G15050.1); similar to BGGP Beta-1-3-galactosyl-O-glycosyl-glycoprotein [Ae (GB:CAH05144.1); similar to Os12g0639700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067391.1); contains InterPro domain Transglutaminase, C-terminal; (InterPro:IPR008958); contains InterPro domain Glycosyl transferase, family 14; (InterPro:IPR003406)\\
## Solyc03g111250 & AT5G14170 & SWIB complex BAF60b domain-containing protein; Identical to Protein At5g14170 [Arabidopsis Thaliana] (GB:Q9FMT4); similar to SWIB complex BAF60b domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G01890.1); similar to OSJNBa0072D21.8 [Oryza sativa (japonica cultivar-group)] (GB:CAD40740.2); similar to OSIGBa0092E09.5 [Oryza sativa (indica cultivar-group)] (GB:CAH66378.1); similar to SWIB/MDM2 [Medicago truncatula] (GB:ABE78941.1); contains InterPro domain SWIB/MDM2; (InterPro:IPR003121)\\
## \addlinespace
## Solyc03g113510 & AT1G16770 & similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAD10260.1)\\
## Solyc03g114680 & NA & NA\\
## Solyc04g018110 & NA & NA\\
## Solyc04g049550 & NA & NA\\
## Solyc04g072380 & NA & NA\\
## \addlinespace
## Solyc04g076330 & NA & NA\\
## Solyc04g077430 & AT4G07990 & DNAJ heat shock N-terminal domain-containing protein; similar to DNAJ heat shock N-terminal domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G03160.1); similar to Os07g0124800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058807.1); similar to chaperone protein DNAJ, putative [Leishmania major] (GB:CAJ09602.1); similar to Os03g0728100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051145.1); contains InterPro domain Heat shock protein DnaJ, N-terminal; (InterPro:IPR001623)\\
## Solyc04g078520 & NA & NA\\
## Solyc04g080770 & AT5G57960 & GTP-binding family protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G49730.1); similar to Small GTP-binding protein domain [Roseiflexus sp. RS-1] (GB:ZP_01357074.1); similar to Os11g0592700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001068195.1); contains InterPro domain GTP-binding protein, HSR1-related; (InterPro:IPR002917); contains InterPro domain Small GTP-binding protein domain; (InterPro:IPR005225); contains InterPro domain GTP1/OBG; (InterPro:IPR006073)\\
## Solyc04g082570 & AT1G20780 & armadillo/beta-catenin repeat protein-related / U-box domain-containing protein; similar to binding / ubiquitin-protein ligase [Arabidopsis thaliana] (TAIR:AT1G76390.2); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAP50990.1); similar to armadillo/beta-catenin repeat family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA97086.1); similar to Os03g0657100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050813.1); contains InterPro domain Armadillo; (InterPro:IPR000225); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain U box; (InterPro:IPR003613)\\
## \addlinespace
## Solyc05g005600 & AT5G40290 & metal-dependent phosphohydrolase HD domain-containing protein; similar to metal-dependent phosphohydrolase HD domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G40270.1); similar to Os01g0109300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001041793.1); similar to Metal-dependent phosphohydrolase (ISS) [Ostreococcus tauri] (GB:CAL49984.1); contains InterPro domain Metal-dependent phosphohydrolase, HD region; (InterPro:IPR003607); contains InterPro domain Metal-dependent phosphohydrolase, HD subdomain; (InterPro:IPR006674)\\
## Solyc05g005650 & NA & NA\\
## Solyc05g007850 & NA & NA\\
## Solyc05g013710 & AT1G67810 & Fe-S metabolism associated domain-containing protein; similar to QS (QUINOLINATE SYNTHASE), quinolinate synthetase A [Arabidopsis thaliana] (TAIR:AT5G50210.1); similar to Os12g0290300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066600.1); similar to hypothetical protein tll1089 [Thermosynechococcus elongatus BP-1] (GB:NP_681880.1); similar to Os09g0270900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062734.1); contains InterPro domain Fe-S metabolism associated SufE; (InterPro:IPR003808)\\
## Solyc05g014000 & AT1G67750 & pectate lyase family protein; Identical to Probable pectate lyase 5 precursor (EC 4.2.2.2) [Arabidopsis Thaliana] (GB:Q9FXD8;GB:Q8L8V9;GB:Q8W116); similar to pectate lyase family protein [Arabidopsis thaliana] (TAIR:AT4G24780.1); similar to pectate lyase family protein [Arabidopsis thaliana] (TAIR:AT5G63180.1); similar to pectate lyase [Salix (GB:BAB59066.1); similar to pectate lyase [Gossypium hirsutum] (GB:AAY85180.1); similar to Pectate lyase [Prunus mume] (GB:BAE48664.1); contains InterPro domain Virulence factor, pectin lyase fold; (InterPro:IPR011050); contains InterPro domain Pectate lyase/Amb allergen; (InterPro:IPR002022); contains InterPro domain Pectolytic enzyme, Pectin lyase fold; (InterPro:IPR012334)\\
## \addlinespace
## Solyc05g014490 & AT3G04130 & binding; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G22670.1); similar to Pentatricopeptide repeat [Medicago truncatula] (GB:ABE84187.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc05g021560 & NA & NA\\
## Solyc06g009600 & NA & NA\\
## Solyc06g031690 & AT2G26210 & ankyrin repeat family protein; similar to ankyrin protein kinase, putative [Arabidopsis thaliana] (TAIR:AT4G18950.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAC79870.1); contains InterPro domain Ankyrin; (InterPro:IPR002110)\\
## Solyc06g036720 & NA & NA\\
## \addlinespace
## Solyc06g054620 & NA & NA\\
## Solyc06g069410 & AT5G17400 & ADP, ATP carrier protein, mitochondrial, putative / ADP/ATP translocase, putative / adenine nucleotide translocator, putative; similar to AAC3 (ADP/ATP CARRIER 3), ATP:ADP antiporter/ binding [Arabidopsis thaliana] (TAIR:AT4G28390.1); similar to Adenine nucleotide translocator 1 [Medicago truncatula] (GB:ABE81429.1); contains InterPro domain Adenine nucleotide translocator 1; (InterPro:IPR002113); contains InterPro domain Mitochondrial carrier protein; (InterPro:IPR002067); contains InterPro domain Mitochondrial substrate carrier; (InterPro:IPR001993)\\
## Solyc06g071800 & NA & NA\\
## Solyc07g006380 & NA & NA\\
## Solyc07g006560 & NA & NA\\
## \addlinespace
## Solyc07g017640 & AT4G31770 & calcineurin-like phosphoesterase family protein; Identical to Lariat debranching enzyme (EC 3.1.-.-) (AtDBR1) (DBR1) [Arabidopsis Thaliana] (GB:Q94K01;GB:O81771); similar to Os03g0725300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051129.1); similar to Lariat debranching enzyme A (GB:Q6GPB8); contains InterPro domain Lariat debranching enzyme, C-terminal; (InterPro:IPR007708); contains InterPro domain Metallophosphoesterase; (InterPro:IPR004843)\\
## Solyc07g053060 & AT2G30780 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G48000.1); similar to Pentatricopeptide repeat [Medicago truncatula] (GB:ABD33237.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940)\\
## Solyc07g054590 & NA & NA\\
## Solyc09g008000 & AT2G37010 & member of NAP subfamily\\
## Solyc09g008010 & AT3G09830 & protein kinase, putative; similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT5G03320.1); similar to Os02g0819600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048536.1); similar to protein serine/threonine kinase [Lophopyrum elongatum] (GB:AAF43496.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719)\\
## \addlinespace
## Solyc09g008690 & AT3G53100 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT5G03820.1); similar to Os03g0683800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050914.1); similar to Os06g0148200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056808.1); similar to Lipolytic enzyme, G-D-S-L [Medicago truncatula] (GB:ABE90349.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc09g014430 & NA & NA\\
## Solyc09g042750 & AT5G48370 & thioesterase family protein; similar to thioesterase family protein [Arabidopsis thaliana] (TAIR:AT2G30720.1); similar to Thioredoxin/protein disulfide isomerase (ISS) [Ostreococcus tauri] (GB:CAL54247.1); similar to Os09g0517700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063681.1); contains domain Thioesterase/thiol ester dehydrase-isomerase (SSF54637); contains domain ACYL-COA THIOESTERASE (PTHR12655); contains domain no description (G3D.3.10.129.10)\\
## Solyc09g061660 & NA & NA\\
## Solyc09g074320 & AT4G03080 & kelch repeat-containing serine/threonine phosphoesterase family protein; Identical to Serine/threonine-protein phosphatase BSL1 (EC 3.1.3.16) (BSU1-like protein 1) (BSL1) [Arabidopsis Thaliana] (GB:Q8L7U5;GB:Q9ZTA4); similar to BSU1 (BRASSINOSTEROID INSENSITIVE 1 suppressor 1), protein serine/threonine phosphatase [Arabidopsis thaliana] (TAIR:AT1G03445.1); similar to kelch repeat-containing protein / serine/threonine phosphoesterase family protein [Arabidopsis thaliana] (TAIR:AT1G08420.1); similar to kelch repeat-containing serine/threonine phosphoesterase family protein [Arabidopsis thaliana] (TAIR:AT2G27210.1); similar to kelch repeat-containing serine/threonine phosphoesterase family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97885.1); similar to Os05g0144400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054625.1); similar to DNA topoisomerase II; Serine/threonine-specific protein phosphatase and bis(5-nucleosyl)-tetraphosphatase [Medicago truncatula] (GB:ABE78157.1); contains InterPro domain Kelch; (InterPro:IPR011498); contains InterPro domain Galactose oxidase, central; (InterPro:IPR011043); contains InterPro domain Serine/threonine-specific protein phosphatase and bis(5-nucleosyl)-tetraphosphatase; (InterPro:IPR006186); contains InterPro domain Kelch repeat; (InterPro:IPR006652); contains InterPro domain Metallophosphoesterase; (InterPro:IPR004843)\\
## \addlinespace
## Solyc09g075320 & NA & NA\\
## Solyc09g092130 & AT1G04920 & Encodes a protein with putative sucrose-phosphate synthase activity.\\
## Solyc09g092230 & NA & NA\\
## Solyc10g005470 & AT4G21445 & similar to Os04g0635700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054010.1); similar to H0410G08.9 [Oryza sativa (indica cultivar-group)] (GB:CAH67654.1)\\
## Solyc10g007360 & AT3G23550 & MATE efflux family protein; similar to ALF5 (ABERRANT LATERAL ROOT FORMATION 5), antiporter/ transporter [Arabidopsis thaliana] (TAIR:AT3G23560.1); similar to hypothetical membrane protein-1 [Marchantia polymorpha] (GB:BAB71817.1); similar to Os07g0502200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059724.1); similar to Os07g0108200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058715.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## \addlinespace
## Solyc10g008240 & NA & NA\\
## Solyc10g038190 & AT2G44830 & protein kinase, putative; similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT5G47750.1); similar to putative protein kinase 5 [Oryza sativa (japonica cultivar-group)] (GB:BAD25318.1); similar to Os04g0546300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053471.1); similar to AvrPto-dependent Pto-interacting protein 3 [Lycopersicon esculentum] (GB:AAW38935.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc10g054100 & NA & NA\\
## Solyc10g079050 & NA & NA\\
## Solyc10g080130 & AT1G60080 & 3' exoribonuclease family domain 1-containing protein; similar to 3' exoribonuclease family protein [Arabidopsis thaliana] (TAIR:AT3G60500.2); similar to 3'-5'-exoribonuclease/RNA binding protein-like protein [Solanum tuberosum] (GB:ABC01886.1); contains InterPro domain Exoribonuclease; (InterPro:IPR001247)\\
## \addlinespace
## Solyc11g022590 & NA & NA\\
## Solyc11g070180 & NA & NA\\
## Solyc12g005900 & NA & NA\\
## Solyc12g087990 & NA & NA\\
## \bottomrule
## \end{tabular}Cluster 23
clusterVis(23)## Using gene as id variables
clusterVis_PCA(23)
clusterVis_line(23)## Using gene, curated as id variables
#clusterGO(23)
y <- genesInClust(23, data.val2, annotation) ## [1] 59kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc01g009900 & NA & NA\\
## Solyc01g010340 & NA & NA\\
## Solyc01g097860 & NA & NA\\
## Solyc02g061810 & AT3G51390 & zinc finger (DHHC type) family protein; similar to zinc finger (DHHC type) family protein [Arabidopsis thaliana] (TAIR:AT3G48760.1); similar to zinc finger (DHHC type) family protein [Arabidopsis thaliana] (TAIR:AT3G56930.1); similar to H0211B05.5 [Oryza sativa (indica cultivar-group)] (GB:CAH67168.1); similar to Os12g0480000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066767.1); similar to OSJNBa0084K11.19 [Oryza sativa (japonica cultivar-group)] (GB:CAE01851.2); contains InterPro domain Zinc finger, DHHC-type; (InterPro:IPR001594)\\
## Solyc02g067680 & AT5G40250 & zinc finger (C3HC4-type RING finger) family protein; Identical to RING-H2 finger protein ATL5I (ATL5I) [Arabidopsis Thaliana] (GB:Q9FL07); similar to zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] (TAIR:AT1G23980.1); similar to RING finger 1-like [Oryza sativa (japonica cultivar-group)] (GB:BAD36516.1); similar to Os02g0743100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048093.1); similar to Os06g0233200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057231.1); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## \addlinespace
## Solyc02g078940 & AT4G21580 & oxidoreductase, zinc-binding dehydrogenase family protein; similar to NADP-dependent oxidoreductase, putative [Arabidopsis thaliana] (TAIR:AT5G61510.1); similar to putative quinone oxidoreductase [Thlaspi caerulescens] (GB:AAY18430.1); contains InterPro domain GroES-like; (InterPro:IPR011032); contains InterPro domain Alcohol dehydrogenase superfamily, zinc-containing; (InterPro:IPR002085); contains InterPro domain Alcohol dehydrogenase, zinc-binding; (InterPro:IPR013149); contains InterPro domain Alcohol dehydrogenase GroES-like; (InterPro:IPR013154)\\
## Solyc02g089840 & NA & NA\\
## Solyc02g092750 & AT4G33920 & protein phosphatase 2C family protein / PP2C family protein; similar to protein phosphatase 2C family protein / PP2C family protein [Arabidopsis thaliana] (TAIR:AT5G66080.1); similar to protein phosphatase 2C, putative / PP2C, putative [Arabidopsis thaliana] (TAIR:AT3G51370.1); similar to Os12g0580900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067133.1); similar to BTH-induced protein phosphatase 2C 2 K2 form [Oryza sativa (indica cultivar-group)] (GB:AAW29521.1); similar to Os03g0761100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051350.1); contains InterPro domain Protein phosphatase 2C-like; (InterPro:IPR001932)\\
## Solyc03g006830 & NA & NA\\
## Solyc03g006840 & NA & NA\\
## \addlinespace
## Solyc03g034020 & NA & NA\\
## Solyc03g111830 & AT5G50240 & L-isoaspartyl methyltransferase 2 (PIMT2)gene, alternatively spliced.\\
## Solyc03g116970 & NA & NA\\
## Solyc03g117110 & AT1G15860 & calcium ion binding; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G12760.1); similar to hypothetical protein DDBDRAFT_0185973 [Dictyostelium discoideum AX4] (GB:XP_638588.1); contains InterPro domain EF-Hand type; (InterPro:IPR011992); contains InterPro domain Protein of unknown function DUF298; (InterPro:IPR005176)\\
## Solyc04g049380 & NA & NA\\
## \addlinespace
## Solyc04g076220 & NA & NA\\
## Solyc05g006460 & AT1G62260 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G02750.1); similar to pentatricopeptide (PPR) repeat-containing protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD37262.1); similar to Os06g0228900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057211.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc05g006690 & NA & NA\\
## Solyc05g007690 & NA & NA\\
## Solyc05g007710 & NA & NA\\
## \addlinespace
## Solyc05g009070 & AT1G68410 & protein phosphatase 2C-related / PP2C-related; similar to protein phosphatase 2C-related / PP2C-related [Arabidopsis thaliana] (TAIR:AT1G09160.1); similar to Protein phosphatase 2C-like [Medicago truncatula] (GB:ABE85667.1); contains InterPro domain Protein phosphatase 2C-like; (InterPro:IPR001932)\\
## Solyc05g010770 & NA & NA\\
## Solyc05g012840 & NA & NA\\
## Solyc05g054210 & NA & NA\\
## Solyc06g006080 & AT2G29630 & Encodes ThiC involved in thiamine biosynthesis. Translation of ThiC is regulated by a riboswitch in the 3' of untranslated region of the messenger RNA.; similar to putative thiamin biosynthesis protein [Oryza sativa] (GB:AAK26130.1); similar to thiamine biosynthesis protein ThiC [Bacillus halodurans C-125] (GB:NP_242799.1); similar to putative thiamine biosythesis protein ThiC [Poa secunda] (GB:AAG49550.1); contains InterPro domain Thiamine biosynthesis protein ThiC; (InterPro:IPR002817)\\
## \addlinespace
## Solyc06g053230 & NA & NA\\
## Solyc06g053530 & AT4G28600 & encodes a calmodulin-binding protein that is expressed in pollen, suspension culture cells, flowers, and fruits.\\
## Solyc06g066770 & NA & NA\\
## Solyc06g069290 & AT1G13230 & leucine-rich repeat family protein; similar to leucine-rich repeat family protein [Arabidopsis thaliana] (TAIR:AT3G25670.1); similar to unnamed protein product; contains similarity to elicitor-inducible receptor EIR gene_id:T5M7.12 [Medicago truncatula] (GB:ABE90677.1); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090)\\
## Solyc06g076560 & AT1G07400 & 17.8 kDa class I heat shock protein (HSP17.8-CI); similar to 17.6 kDa class I heat shock protein (HSP17.6A-CI) [Arabidopsis thaliana] (TAIR:AT1G59860.1); similar to 17.5 kDa class I heat shock protein [Carica papaya] (GB:AAR25848.1); contains InterPro domain HSP20-like chaperone; (InterPro:IPR008978); contains InterPro domain Heat shock protein Hsp20; (InterPro:IPR002068)\\
## \addlinespace
## Solyc07g017220 & NA & NA\\
## Solyc07g042170 & NA & NA\\
## Solyc07g066170 & NA & NA\\
## Solyc08g007280 & NA & NA\\
## Solyc08g007820 & NA & NA\\
## \addlinespace
## Solyc08g060920 & AT5G20150 & SPX (SYG1/Pho81/XPR1) domain-containing protein; similar to SPX (SYG1/Pho81/XPR1) domain-containing protein [Arabidopsis thaliana] (TAIR:AT2G26660.1); similar to Os06g0603600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058013.1); similar to IDS4-like protein [Solanum lycopersicum] (GB:CAG29394.1); contains InterPro domain SPX, N-terminal; (InterPro:IPR004331)\\
## Solyc08g075810 & AT1G20560 & AMP-dependent synthetase and ligase family protein; similar to AMP-dependent synthetase and ligase family protein [Arabidopsis thaliana] (TAIR:AT2G17650.1); similar to AMP-binding enzyme, putative [Medicago truncatula] (GB:ABE77669.1); contains InterPro domain AMP-dependent synthetase and ligase; (InterPro:IPR000873)\\
## Solyc08g078910 & NA & NA\\
## Solyc09g010270 & NA & NA\\
## Solyc09g065860 & AT1G03030 & phosphoribulokinase/uridine kinase family protein; similar to Os12g0601200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067208.1); similar to phosphoribulokinase/uridine kinase family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA99792.2); contains domain URIDINE CYTIDINE KINASE I (PTHR10285:SF6); contains domain URIDINE KINASE RELATED (PTHR10285); contains domain P-loop containing nucleoside triphosphate hydrolases (SSF52540); contains domain no description (G3D.3.40.1070.10)\\
## \addlinespace
## Solyc09g083120 & AT4G14570 & acylaminoacyl-peptidase-related; similar to serine-type peptidase [Arabidopsis thaliana] (TAIR:AT5G36210.1); similar to Os10g0415600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064602.1); similar to prolyl oligopeptidase family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABB47613.1); similar to prolyl oligopeptidase family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABB47614.1); contains InterPro domain Peptidase S9, prolyl oligopeptidase active site region; (InterPro:IPR001375); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Terpenoid synthase; (InterPro:IPR008949)\\
## Solyc10g007120 & NA & NA\\
## Solyc10g062160 & AT3G60190 & At3g60190 encodes Arabidopsis dynamin-related protein 1E, DRP1E, also known as EDR3, ADL4 and ADL1E, which is 624 amino acid residues long, has a predicted mass of 69.8 kDa and a pI of 7.5. Dynamin-related protein 1E belongs to a plant-specific subclass of dynamin-related proteins (DRP1), consisting of five members in Arabidopsis (A, B, C, D, E). This class is characterized by having an N-terminal GTPase domain, a central ‘dynamin 2‘ domain and a C-terminal GTPase effector domain (GED), a typical structure for plant dynamin-related proteins. However, this class lacks a PH domain and a proline-rich domain, which are found in classical animal dynamin-like proteins. Based on work on animal dynamins, the plant DRP1 proteins should be able to form polymeric structures that wrap around membranes to facilitate membrane tubulation and pinching off of vesicles, processes that are essential to vesicle trafficking and membrane compartmentalization. The edr3 mutation causes a P77L substitution in the G2 motif of the GTPase domain of DRP1E. edr3 mutant Arabidopsis plants display enhanced cell death in response to powdery mildew infection.\\
## Solyc10g086320 & AT3G09920 & PIP5K9 (PHOSPHATIDYL INOSITOL MONOPHOSPHATE 5 KINASE); 1-phosphatidylinositol-4-phosphate 5-kinase; Identical to Phosphatidylinositol-4-phosphate 5-kinase 9 (EC 2.7.1.68) (AtPIP5K9) (1-phosphatidylinositol-4-phosphate kinase 9) (PtdIns(4)P-5-kinase 9) (Diphosphoinositide kinase 9) (PIP5K9) [Arabidopsis Thaliana] (GB:Q8L850;GB:Q9SF93); similar to phosphatidylinositol-4-phosphate 5-kinase family protein [Arabidopsis thaliana] (TAIR:AT1G10900.1); similar to phosphatidylinositol-4-phosphate 5-kinase family protein [Arabidopsis thaliana] (TAIR:AT1G60890.1); similar to phosphatidylinositol-4-phosphate 5-kinase [Oryza sativa (japonica cultivar-group)] (GB:CAD27794.1); similar to Phosphatidylinositol-4-phosphate 5-kinase 1 precursor (1-phosphatidylinositol-4-phosphate kinase) (PIP5K) (PtdIns(4)P-5-kinase) (Diphosphoinositide kinase) (GB:Q6EX42); similar to Os02g0822500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048560.1); contains InterPro domain Phosphatidylinositol-4-phosphate 5-kinase; (InterPro:IPR002498); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain MORN motif; (InterPro:IPR003409)\\
## Solyc10g086690 & AT3G54020 & phosphatidic acid phosphatase-related / PAP2-related; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G37940.1); similar to Os01g0850100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044812.1); similar to hypothetical protein PY02331 [Plasmodium yoelii yoelii str. 17XNL] (GB:XP_730203.1); similar to Os05g0452900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055712.1); contains domain SPINGOMYELIN SYNTHETASE-RELATED, ARATH (PTHR21290:SF1); contains domain SPHINGOMYELIN SYNTHETASE (PTHR21290); contains domain CoA-dependent acyltransferases (SSF52777)\\
## \addlinespace
## Solyc11g005710 & NA & NA\\
## Solyc11g011980 & AT2G32950 & Represses photomorphogenesis and induces skotomorphogenesis in the dark. Contains a ring finger zinc-binding motif, a coiled-coil domain, and several WD-40 repeats, similar to G-beta proteins. The C-terminus has homology to TAFII80, a subunit of the TFIID component of the RNA polymerase II of Drosophila. Nuclear localization in the dark and cytoplasmic in the light.\\
## Solyc11g044480 & AT1G05960 & binding; similar to cyclin-related [Arabidopsis thaliana] (TAIR:AT2G41830.1); similar to At1g05960/T21E18_20 [Medicago truncatula] (GB:ABE90589.1); similar to hypothetical protein MtrDRAFT_AC136506g30v1 [Medicago truncatula] (GB:ABE82339.1); similar to Os01g0898300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045092.1); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989)\\
## Solyc11g045480 & AT5G06560 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G11850.2); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABA98276.1); similar to Os11g0575900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001068136.1); similar to Os03g0650800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050787.1); contains InterPro domain Protein of unknown function DUF593; (InterPro:IPR007656)\\
## Solyc11g045510 & AT5G12920 & similar to unnamed protein product [Ostreococcus tauri] (GB:CAL53992.1); similar to Os02g0591600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047287.1); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## \addlinespace
## Solyc11g064860 & NA & NA\\
## Solyc11g071500 & NA & NA\\
## Solyc12g005570 & AT2G20820 & similar to hypothetical protein [Capsicum chinense] (GB:CAJ13713.1)\\
## Solyc12g009040 & AT2G04350 & long-chain-fatty-acid--CoA ligase family protein / long-chain acyl-CoA synthetase family protein (LACS8); similar to LACS9 (LONG CHAIN ACYL-COA SYNTHETASE 9), long-chain-fatty-acid-CoA ligase [Arabidopsis thaliana] (TAIR:AT1G77590.1); similar to Os05g0317200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055177.1); similar to putative long chain acyl-CoA synthetase 9 [Trifolium pratense] (GB:BAE71220.1); similar to long chain acyl-CoA synthetase [Brassica napus] (GB:CAC19877.1); contains InterPro domain AMP-dependent synthetase and ligase; (InterPro:IPR000873)\\
## Solyc12g009220 & NA & NA\\
## \addlinespace
## Solyc12g010480 & AT4G30850 & heptahelical transmembrane protein homologous to human adiponectin receptors and progestin receptors\\
## Solyc12g013500 & NA & NA\\
## Solyc12g056110 & AT4G11150 & Encodes a vacuolar H+-ATPase subunit E isoform 1 which is required for Golgi organization and vacuole function in embryogenesis.\\
## Solyc12g099170 & AT5G49610 & F-box family protein; similar to F-box family protein [Arabidopsis thaliana] (TAIR:AT1G33530.1); similar to F-box protein interaction domain [Medicago truncatula] (GB:ABE93710.1); contains InterPro domain Cyclin-like F-box; (InterPro:IPR001810); contains InterPro domain Galactose oxidase, central; (InterPro:IPR011043)\\
## \bottomrule
## \end{tabular}Cluster 24
High in ambr and bmbr.
A few interesting genes:
Alot of atpase. Many genes that have mutant characterizations.
clusterVis(24)## Using gene as id variables
clusterVis_PCA(24)
clusterVis_line(24)## Using gene, curated as id variables
#clusterGO(24)
y <- genesInClust(24, data.val2, annotation) ## [1] 83kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g006900 & NA & NA\\
## Solyc01g008190 & NA & NA\\
## Solyc01g011020 & NA & NA\\
## Solyc01g017070 & NA & NA\\
## Solyc01g068140 & AT3G62160 & transferase family protein; similar to transferase family protein [Arabidopsis thaliana] (TAIR:AT1G28680.1); similar to Os01g0291500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042791.1); similar to Os05g0278500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055082.1); similar to acyltransferase [Iris x hollandica] (GB:BAE94328.1); contains InterPro domain Transferase; (InterPro:IPR003480)\\
## \addlinespace
## Solyc01g068170 & NA & NA\\
## Solyc01g068580 & AT1G02330 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G28770.1); similar to unnamed protein product [Tetraodon nigroviridis] (GB:CAF90174.1); similar to Os03g0374100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050211.1); contains InterPro domain Hepatocellular carcinoma-associated antigen 59; (InterPro:IPR010756)\\
## Solyc01g079360 & NA & NA\\
## Solyc01g090460 & NA & NA\\
## Solyc01g094880 & AT5G28350 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G61480.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD19204.1); similar to Os02g0786000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048332.1); similar to WD40-like [Medicago truncatula] (GB:ABD28704.1); contains InterPro domain Protein of unknown function DUF1339; (InterPro:IPR009771)\\
## \addlinespace
## Solyc01g096490 & AT5G13530 & Stone et al. (Plant Cell, 2007, PubMed ID 17194765) suggested that this locus is misannotated, with a full open reading frame ORF likely encompassing both the At5g13530 and At5g13540 loci. The misannotation will be corrected with the next Arabidopsis genome release (TAIR8). At5g13530 and At5g13540 together encode KEEP ON GOING (KEG), a RING E3 ligase involved in abscisic acid signaling. KEG is essential for Arabidopsis growth and development.\\
## Solyc01g099000 & AT3G05340 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G25970.1); similar to PPR986-12 [Physcomitrella patens] (GB:BAD67155.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc01g103440 & AT1G09830 & glycinamide ribonucleotide synthetase (GAR synthetase) that catalyzes the conversion of phosphoribosyl amine to phosphoribosyl glycineamide\\
## Solyc02g065290 & NA & NA\\
## Solyc02g067440 & AT5G39890 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G15120.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAB03364.1); similar to Os01g0185500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042241.1); contains InterPro domain Protein of unknown function DUF1637; (InterPro:IPR012864); contains InterPro domain Cupin, RmlC-type; (InterPro:IPR011051)\\
## \addlinespace
## Solyc02g080990 & AT4G04350 & EMB2369 (EMBRYO DEFECTIVE 2369); ATP binding / aminoacyl-tRNA ligase; similar to OVA2 (OVULE ABORTION 2), ATP binding / aminoacyl-tRNA ligase [Arabidopsis thaliana] (TAIR:AT5G49030.2); similar to Isoleucyl-tRNA synthetase (ISS) [Ostreococcus tauri] (GB:CAL53315.1); similar to leucyl-tRNA synthetase [Treponema denticola ATCC 35405] (GB:NP_972938.1); similar to leucyl-tRNA synthetase [Salinibacter ruber DSM 13855] (GB:YP_445066.1); contains InterPro domain Aminoacyl-tRNA synthetase, class I; (InterPro:IPR001412); contains InterPro domain tRNA synthetase, valyl/leucyl, anticodon-binding; (InterPro:IPR013155); contains InterPro domain Aminoacyl-tRNA synthetase, class Ia; (InterPro:IPR002300); contains InterPro domain Aminoacyl-tRNA synthetase, class 1a, anticodon-binding; (InterPro:IPR009080); contains InterPro domain ValRS-IleRS-LeuRS editing; (InterPro:IPR009008); contains InterPro domain Leucyl-tRNA synthetase bacterial/mitochondrial, class Ia; (InterPro:IPR002302)\\
## Solyc02g082160 & NA & NA\\
## Solyc02g083230 & AT4G35800 & Encodes a large subunit of RNA polymerase II (aka RNA polymerase B).\\
## Solyc02g084500 & AT3G51130 & Identical to UPF0183 protein At3g51130 [Arabidopsis Thaliana] (GB:Q9SD33;GB:Q94C31); similar to ENSANGP00000005609 [Anopheles gambiae str. PEST] (GB:XP_310381.2); similar to Os06g0714000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058570.1); contains InterPro domain Protein of unknown function UPF0183; (InterPro:IPR005373)\\
## Solyc02g086770 & NA & NA\\
## \addlinespace
## Solyc02g088130 & NA & NA\\
## Solyc02g088650 & AT5G39350 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G18750.1); similar to pentatricopeptide (PPR) repeat-containing protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD27693.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc02g089160 & AT5G38970 & Encodes a polypeptide involved in the C-6 oxidation of brassinosteroids. Heterologous expression of the protein in yeast conferred the ability to catalyze multiple reactions in which the C-6 position of 6-deoxocastasterone, 6-deoxotyphasterol, 3-dehydro-6-deoxoteasterone and 6-deoxoteasterone are oxidized.\\
## Solyc02g092280 & NA & NA\\
## Solyc03g006780 & NA & NA\\
## \addlinespace
## Solyc03g025700 & AT4G25270 & pentatricopeptide (PPR) repeat-containing protein; similar to CRR2 (CHLORORESPIRATORY REDUCTION 2), binding [Arabidopsis thaliana] (TAIR:AT3G46790.1); similar to Os03g0852700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051926.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAO20081.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc03g059190 & AT3G59710 & short-chain dehydrogenase/reductase (SDR) family protein; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT5G51030.1); similar to putative short-chain hydrogenase/reductase [Musa acuminata] (GB:AAR96014.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc03g078790 & NA & NA\\
## Solyc03g095300 & AT2G40815 & NA\\
## Solyc03g112460 & NA & NA\\
## \addlinespace
## Solyc03g115400 & AT2G35340 & MEE29 (maternal effect embryo arrest 29); ATP-dependent RNA helicase; similar to RNA helicase, putative [Arabidopsis thaliana] (TAIR:AT4G16680.1); similar to ATP-dependent RNA helicase, putative [Arabidopsis thaliana] (TAIR:AT3G26560.1); similar to EMB2733/ESP3 (EMBRYO DEFECTIVE 2733), ATP-dependent RNA helicase [Arabidopsis thaliana] (TAIR:AT1G32490.1); similar to PREDICTED: similar to Putative pre-mRNA splicing factor RNA helicase (ATP-dependent RNA helicase #3) (DEAH-box protein 16) isoform 1 [Canis familiaris] (GB:XP_538827.2); similar to PREDICTED: similar to Putative pre-mRNA splicing factor RNA helicase (ATP-dependent RNA helicase #3) (DEAH-box protein 16) isoform 6 [Bos taurus] (GB:XP_872459.1); similar to RNA helicase-like [Oryza sativa (japonica cultivar-group)] (GB:BAD01767.1); contains InterPro domain ATP-dependent helicase, DEAH-box; (InterPro:IPR002464); contains InterPro domain Helicase-associated region; (InterPro:IPR007502); contains InterPro domain DEAD/DEAH box helicase; (InterPro:IPR001410); contains InterPro domain Protein of unknown function DUF1605; (InterPro:IPR011709); contains InterPro domain DEAD/DEAH box helicase, N-terminal; (InterPro:IPR011545); contains InterPro domain Helicase, C-terminal; (InterPro:IPR001650)\\
## Solyc03g118210 & AT5G50970 & WD-40 repeat family protein; similar to transducin family protein / WD-40 repeat family protein [Arabidopsis thaliana] (TAIR:AT5G19920.1); similar to WD40-like [Medicago truncatula] (GB:ABE80202.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046); contains InterPro domain Regulator of chromosome condensation, RCC1; (InterPro:IPR000408)\\
## Solyc03g119030 & AT1G48635 & peroxin-3 family protein; similar to peroxin-3 family protein [Arabidopsis thaliana] (TAIR:AT3G18160.1); similar to PREDICTED: similar to peroxisomal biogenesis factor 3 [Gallus gallus] (GB:XP_419708.1); similar to Os09g0314300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062839.1); contains InterPro domain Peroxin-3; (InterPro:IPR006966)\\
## Solyc03g120300 & NA & NA\\
## Solyc03g120700 & AT5G16300 & similar to PREDICTED: similar to low density lipoprotein B isoform 1 [Bos taurus] (GB:XP_593871.2); similar to Os01g0777000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044419.1); contains domain Cullin repeat (SSF74788)\\
## \addlinespace
## Solyc04g009400 & NA & NA\\
## Solyc04g045540 & ATCG01130 & Identical to Putative membrane protein ycf1 (ycf1-B) [Arabidopsis Thaliana] (GB:P56785); similar to hypothetical chloroplast RF1 [Gossypium hirsutum] (GB:YP_538982.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41305.1); similar to hypothetical chloroplast RF1 [Eucalyptus globulus subsp. globulus] (GB:YP_636357.1); contains InterPro domain Ycf1; (InterPro:IPR008896)\\
## Solyc04g050620 & NA & NA\\
## Solyc04g071980 & AT4G09830 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G64780.1); similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE81201.1); contains InterPro domain Tetraspanin; (InterPro:IPR008952)\\
## Solyc04g078160 & AT5G23200 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G08270.1); similar to Os02g0634600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047513.1); similar to hypothetical protein MA4_54B05.28 [Musa acuminata] (GB:ABF70082.1)\\
## \addlinespace
## Solyc05g008000 & AT1G30110 & diadenosine 5',5'''-P1,P4-tetraphosphate hydrolase, putative; similar to diadenosine 5',5'''-P1,P4-tetraphosphate hydrolase, putative [Arabidopsis thaliana] (TAIR:AT3G10620.1); similar to diadenosine 5',5'''-P1,P4-tetraphosphate hydrolase [Lupinus angustifolius] (GB:AAC49902.1); similar to Chain A, Solution Structure Of The Nudix Enzyme Diadenosine Tetraphosphate Hydrolase From Lupinus Angustifolius L. (GB:1F3Y); contains InterPro domain NUDIX hydrolase; (InterPro:IPR000086)\\
## Solyc05g009990 & AT1G68780 & leucine-rich repeat family protein; similar to leucine-rich repeat family protein [Arabidopsis thaliana] (TAIR:AT3G25670.1); similar to unnamed protein product; contains similarity to elicitor-inducible receptor EIR gene_id:T5M7.12 [Medicago truncatula] (GB:ABE90677.1); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090)\\
## Solyc05g014540 & AT1G67630 & DNA polymerase alpha subunit B family; similar to Os12g0242900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066483.1); similar to DNA polymerase alpha subunit B family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA97199.2); contains InterPro domain DNA polymerase epsilon subunit B; (InterPro:IPR007185)\\
## Solyc05g051970 & AT4G39860 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G78150.2); similar to TPA: TPA_inf: HN1-like protein isoform 1 [Oryza sativa (japonica cultivar-group)] (GB:DAA01822.1); similar to Os04g0455600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052962.1); similar to Os02g0574600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047207.1)\\
## Solyc05g052180 & AT2G40780 & RNA binding / translation initiation factor; similar to F-box protein-related [Arabidopsis thaliana] (TAIR:AT2G40910.1); similar to Os03g0114200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048742.1); similar to hypothetical protein LOC393440 [Danio rerio] (GB:NP_956762.1); contains InterPro domain Nucleic acid-binding, OB-fold, subgroup; (InterPro:IPR012340); contains InterPro domain Nucleic acid-binding, OB-fold; (InterPro:IPR008994); contains InterPro domain S1, IF1 type; (InterPro:IPR006196); contains InterPro domain Eukaryotic initiation factor 1A (eIF-1A); (InterPro:IPR001253)\\
## \addlinespace
## Solyc05g055800 & AT1G05840 & aspartyl protease family protein; similar to aspartyl protease family protein [Arabidopsis thaliana] (TAIR:AT3G02740.1); similar to Os02g0473200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046837.1); similar to Eukaryotic aspartyl protease [Medicago truncatula] (GB:ABE89788.1); similar to OSJNBa0008A08.5 [Oryza sativa (japonica cultivar-group)] (GB:CAE01597.2); contains InterPro domain Peptidase A1, pepsin; (InterPro:IPR001461); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007)\\
## Solyc06g008880 & AT4G03020 & transducin family protein / WD-40 repeat family protein; similar to transducin family protein / WD-40 repeat family protein [Arabidopsis thaliana] (TAIR:AT2G43770.1); similar to LEC14B homolog (GB:O24467); similar to LEC14B protein (GB:Q40153); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc06g068820 & AT3G59280 & mutant exhibited resistance to growth on media containing thaxtomin due to a difference in the rate of uptake of the toxin.We proposed that TXR1 is a component of, or regulator of, a dispensable transport mechanism.\\
## Solyc06g072290 & NA & NA\\
## Solyc06g073750 & AT5G20950 & glycosyl hydrolase family 3 protein; similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT3G62710.1); similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT5G20940.1); similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT5G04885.1); similar to beta-D-glucan exohydrolase [Nicotiana tabacum] (GB:BAA33065.1); similar to beta-D-glucosidase [Tropaeolum majus] (GB:CAA07070.1); similar to beta-D-glucosidase [Gossypium hirsutum] (GB:AAQ17461.1); contains InterPro domain Glycoside hydrolase, family 3, C-terminal; (InterPro:IPR002772); contains InterPro domain Glycoside hydrolase, family 3, N-terminal; (InterPro:IPR001764)\\
## \addlinespace
## Solyc07g047860 & AT2G05120 & transporter; similar to Unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAN52748.1); similar to nucleoporin [Lotus japonicus] (GB:CAI64810.1); similar to Os03g0225500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049433.1); contains InterPro domain Nup133 nucleoporin; (InterPro:IPR007187)\\
## Solyc07g049430 & AT2G42990 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT2G04570.1); similar to GDSL-motif lipase/hydrolase-like [Oryza sativa (japonica cultivar-group)] (GB:BAD22300.1); similar to Os02g0189300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046141.1); similar to Os06g0636700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058145.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc07g054760 & AT4G10265 & wound-responsive protein, putative; similar to wound-responsive family protein [Arabidopsis thaliana] (TAIR:AT4G10270.1); similar to wound induced protein [Solanum lycopersicum] (GB:CAA42537.1)\\
## Solyc07g056250 & AT5G50890 & similar to lipase class 3 family protein [Arabidopsis thaliana] (TAIR:AT2G05260.1); similar to Os01g0243000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042560.1); similar to Os01g0751600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044260.1); similar to lipase class 3-like [Oryza sativa (japonica cultivar-group)] (GB:BAB84413.1)\\
## Solyc07g061750 & NA & NA\\
## \addlinespace
## Solyc07g062980 & NA & NA\\
## Solyc08g022240 & AT1G30370 & lipase class 3 family protein; similar to lipase class 3 family protein [Arabidopsis thaliana] (TAIR:AT1G06800.1); similar to Os01g0900400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045105.1); similar to putative DAD1 [Oryza sativa (japonica cultivar-group)] (GB:BAB89948.1); similar to Os05g0390000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055438.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Lipase, class 3; (InterPro:IPR002921)\\
## Solyc08g048390 & NA & NA\\
## Solyc08g061130 & AT5G11260 & Basic leucine zipper (bZIP) transcription factor. Nuclear localization. Involved in light-regulated transcriptional activation of G-box-containing promoters. Negatively regulated by Cop1. Although cytokinins do not appear to affect the gene's promoter activity, they appear to stabilize the protein. HY5 plays a role in anthocyanin accumulation in far-red light and blue light, but not in red light or in the dark. Binds to G- and Z-boxes, and other ACEs, but not to E-box.\\
## Solyc08g067900 & NA & NA\\
## \addlinespace
## Solyc08g068120 & AT4G32700 & Encodes a homolog of Drosophila MUS308 and mammalian DNA polymerase, which prevent spontaneous or DNA damage-induced production of DNA double strand breaks. Two conserved functional domains: an N-terminal superfamily II DNA/RNA helicase domain and a C-terminal prokaryotic-type DNA polymerase I domain. Required for regulated cell division and differentiation in meristems. Mutant plants show morphological defects, such as short roots, serrated leaves, and fasciation, as well as defective patterns of cell division and differentiation in the meristem. Mutant plants had 2.5 to 4.5-fold higher expression of ATGR1, ATBRCA1 and RAD51 genes.\\
## Solyc08g076060 & NA & NA\\
## Solyc08g077800 & AT5G41150 & Confers resistance to UV radiation. Homolog of the human xeroderma pigmentosum group F DNA repair and yeast Rad1 proteins\\
## Solyc08g080120 & AT1G62990 & Encodes a homeodomain transcription factor of the Knotted family. May be involved in secondary cell wall biosynthesis.Mutants have moderately irregular xylem development\\
## Solyc08g081260 & AT4G23440 & transmembrane receptor; similar to nucleoside-triphosphatase/ nucleotide binding / transmembrane receptor [Arabidopsis thaliana] (TAIR:AT5G56220.1); similar to putative ATPase [Triticum aestivum] (GB:CAJ19360.1); similar to Os08g0499100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062146.1); similar to Os01g0760400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044316.1); contains InterPro domain Disease resistance protein; (InterPro:IPR000767); contains InterPro domain Toll-Interleukin receptor; (InterPro:IPR000157)\\
## \addlinespace
## Solyc08g083210 & AT4G02290 & glycosyl hydrolase family 9 protein; Identical to Endoglucanase 17 precursor (EC 3.2.1.4) (Endo-1,4-beta glucanase 17) [Arabidopsis Thaliana] (GB:O81416); similar to ATCEL2 (Arabidopsis thaliana Cellulase 2), hydrolase, hydrolyzing O-glycosyl compounds [Arabidopsis thaliana] (TAIR:AT1G02800.1); similar to endo-1,4-beta-glucanase [Pisum sativum] (GB:BAA85150.1); similar to endo-1,4-beta-glucanase precursor (GB:AAA80495.1); similar to Endoglucanase 3 precursor (Endo-1,4-beta glucanase 3) (OsGLU8) (GB:Q8LQ92); contains InterPro domain Six-hairpin glycosidase; (InterPro:IPR008928); contains InterPro domain Glycoside transferase, six-hairpin, subgroup; (InterPro:IPR012343); contains InterPro domain Glycoside hydrolase, family 9; (InterPro:IPR001701)\\
## Solyc09g008810 & NA & NA\\
## Solyc09g011060 & AT2G37710 & Induced in response to Salicylic acid.\\
## Solyc09g018170 & NA & NA\\
## Solyc09g042290 & AT4G16390 & chloroplastic RNA-binding protein P67, putative; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G46580.1); similar to RSP67.2, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF94642.1); similar to RSP67.2 [Raphanus sativus] (GB:CAC01941.1); similar to 67kD chloroplastic RNA-binding protein, P67.1 [Raphanus sativus] (GB:CAC01940.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Smr protein/MutS2 C-terminal; (InterPro:IPR002625); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc09g061670 & NA & NA\\
## Solyc09g065790 & NA & NA\\
## Solyc10g007000 & NA & NA\\
## Solyc10g045630 & AT5G24690 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G22790.1); similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE84237.1)\\
## Solyc10g084540 & NA & NA\\
## \addlinespace
## Solyc11g007800 & NA & NA\\
## Solyc11g011550 & NA & NA\\
## Solyc11g013840 & AT1G34270 & exostosin family protein; similar to ARAD1 (ARABINAN DEFICIENT 1), catalytic [Arabidopsis thaliana] (TAIR:AT2G35100.1); similar to OSJNBa0043A12.35 [Oryza sativa (japonica cultivar-group)] (GB:CAE02830.1); similar to Os04g0670600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054215.1); similar to Exostosin-like [Medicago truncatula] (GB:ABC75371.1); contains InterPro domain Exostosin-like; (InterPro:IPR004263)\\
## Solyc11g062160 & NA & NA\\
## Solyc11g067040 & AT3G24560 & novel gene involved in embryogenesis\\
## \addlinespace
## Solyc12g011360 & NA & NA\\
## Solyc12g015850 & AT5G55950 & transporter-related; similar to transporter-related [Arabidopsis thaliana] (TAIR:AT5G57100.1); similar to glucose-6-phosphate/phosphate-tranlocator-like [Oryza sativa (japonica cultivar-group)] (GB:BAD13039.1); contains InterPro domain Protein of unknown function DUF250; (InterPro:IPR004853)\\
## Solyc12g017860 & AT2G06990 & encodes a putative DExH-box RNA helicase that acts redundantly with HEN1, HUA1, and HUA2 in the specification of floral organ identity in the third whorl.\\
## \bottomrule
## \end{tabular}Cluster 25
same pattern as 24 high in ambr and wtbmbr.
clusterVis(25)## Using gene as id variables
clusterVis_PCA(25)
clusterVis_line(25)## Using gene, curated as id variables
#clusterGO(25)
y <- genesInClust(25, data.val2, annotation) ## [1] 116kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc01g005100 & AT1G68080 & oxidoreductase, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors; similar to Os03g0238700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049501.1); similar to hypothetical protein SwitDRAFT_3374 [Sphingomonas wittichii RW1] (GB:ZP_01607997.1); contains InterPro domain Prolyl 4-hydroxylase, alpha subunit; (InterPro:IPR006620)\\
## Solyc01g020200 & NA & NA\\
## Solyc01g020220 & AT5G27740 & nucleoside-triphosphatase/ nucleotide binding; similar to EMB1968 (EMBRYO DEFECTIVE 1968), ATPase [Arabidopsis thaliana] (TAIR:AT1G21690.1); similar to Os03g0792600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051525.1); similar to replication factor C 38 kDa subunit [Oryza sativa (japonica cultivar-group)] (GB:BAC76086.1); contains InterPro domain Replication factor C conserved region; (InterPro:IPR000862); contains InterPro domain DNA polymerase III clamp loader subunit, C-terminal; (InterPro:IPR008921); contains InterPro domain AAA ATPase; (InterPro:IPR003593)\\
## Solyc01g057330 & AT5G24380 & closest Arabidopsis homolog of Zea maize metal-phytosiderophore/metal-nicotianamine transporter ZmYS1\\
## Solyc01g079740 & NA & NA\\
## \addlinespace
## Solyc01g080900 & AT2G32440 & ent-kaurenoic acid hydroxylase (KAO2)\\
## Solyc01g088660 & NA & NA\\
## Solyc01g096740 & AT5G13750 & ZIFL1 (ZINC INDUCED FACILITATOR-LIKE 1); tetracycline:hydrogen antiporter/ transporter; similar to ZIF1 (ZINC INDUCED FACILITATOR 1), carbohydrate transporter/ sugar porter [Arabidopsis thaliana] (TAIR:AT5G13740.1); similar to transporter, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABG22349.1); contains InterPro domain Major facilitator superfamily; (InterPro:IPR007114); contains InterPro domain Tetracycline resistance protein; (InterPro:IPR001958); contains InterPro domain Major facilitator superfamily MFS_1; (InterPro:IPR011701)\\
## Solyc01g096980 & NA & NA\\
## Solyc01g099750 & AT5G27730 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G47900.1); similar to Os01g0931100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045294.1); similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE92860.1)\\
## \addlinespace
## Solyc01g099810 & NA & NA\\
## Solyc01g100920 & NA & NA\\
## Solyc01g100930 & AT1G09390 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT1G56670.1); similar to Os01g0329900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042924.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAT85172.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc01g104660 & NA & NA\\
## Solyc01g104690 & NA & NA\\
## \addlinespace
## Solyc01g107650 & NA & NA\\
## Solyc01g108520 & NA & NA\\
## Solyc01g109880 & AT1G75390 & bZIP transcription factor family protein; similar to GBF6 (G-box binding factor 6), DNA binding / transcription factor [Arabidopsis thaliana] (TAIR:AT4G34590.1); similar to bZIP transcription factor BZI-2 [Nicotiana tabacum] (GB:AAK92213.1); contains InterPro domain Eukaryotic transcription factor, DNA-binding; (InterPro:IPR008917); contains InterPro domain Basic leucine zipper; (InterPro:IPR011700); contains InterPro domain Basic-leucine zipper (bZIP) transcription factor; (InterPro:IPR004827)\\
## Solyc01g110680 & AT2G21210 & Putative auxin-regulated protein whose expression is downregulated in response to chitin oligomers.\\
## Solyc01g111340 & AT4G38650 & glycosyl hydrolase family 10 protein; similar to glycosyl hydrolase family 10 protein [Arabidopsis thaliana] (TAIR:AT4G38300.1); similar to Glycosyl hydrolase family 10 protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF94920.1); similar to Glycosyl hydrolase family 10 protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF94921.1); contains InterPro domain Glycoside hydrolase, family 10; (InterPro:IPR001000); contains InterPro domain Galactose-binding like; (InterPro:IPR008979)\\
## \addlinespace
## Solyc02g023990 & AT4G20760 & short-chain dehydrogenase/reductase (SDR) family protein; similar to ABA2 (ABA DEFICIENT 2), oxidoreductase [Arabidopsis thaliana] (TAIR:AT1G52340.1); similar to oxidoreductase, short chain dehydrogenase/reductase family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA99281.1); similar to Os12g0609500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067243.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc02g063520 & AT4G37790 & Encodes homeobox protein HAT22.\\
## Solyc02g072240 & AT4G18780 & Encodes a member of the cellulose synthase family involved in secondary cell wall biosynthesis. Mutants have abnormal xylem formation, reduced cellulose content, and enhanced drought and osmotic stress tolerance. Mediates resistance towards bacterial pathogens via ABA. Confers resistance towards bacterial and fungal pathogens, independent of salicylic acid, ethylene and jasmonate signaling.\\
## Solyc02g077720 & NA & NA\\
## Solyc02g079610 & NA & NA\\
## \addlinespace
## Solyc02g080520 & NA & NA\\
## Solyc02g089250 & NA & NA\\
## Solyc02g091690 & NA & NA\\
## Solyc02g092090 & NA & NA\\
## Solyc03g006340 & NA & NA\\
## \addlinespace
## Solyc03g006450 & AT1G48320 & thioesterase family protein; similar to thioesterase family protein [Arabidopsis thaliana] (TAIR:AT5G48950.1); similar to thioesterase family protein [Salinibacter ruber DSM 13855] (GB:YP_446832.1); similar to Os05g0137700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054588.1); similar to Os03g0691400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050954.1); contains InterPro domain Phenylacetic acid degradation-related protein; (InterPro:IPR003736); contains InterPro domain Thioesterase superfamily; (InterPro:IPR006683)\\
## Solyc03g044740 & AT3G50440 & hydrolase; similar to esterase, putative [Arabidopsis thaliana] (TAIR:AT2G23620.1); similar to salicylic acid-binding protein 2 [Nicotiana tabacum] (GB:AAR87711.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073)\\
## Solyc03g059260 & AT3G57680 & peptidase S41 family protein; similar to C-terminal processing protease, putative [Arabidopsis thaliana] (TAIR:AT4G17740.2); similar to carboxyl-terminal processing protease [Nostoc sp. PCC 7120] (GB:NP_487460.1); similar to Os06g0318600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057504.1); contains InterPro domain PDZ/DHR/GLGF; (InterPro:IPR001478); contains InterPro domain Peptidase S41; (InterPro:IPR005151); contains InterPro domain Peptidase S41A, C-terminal protease; (InterPro:IPR004447)\\
## Solyc03g063730 & AT1G33110 & MATE efflux family protein; similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G33080.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G33090.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G33100.1); similar to Multi antimicrobial extrusion protein MatE [Medicago truncatula] (GB:ABE91543.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## Solyc03g080100 & NA & NA\\
## \addlinespace
## Solyc03g093360 & AT4G39730 & lipid-associated family protein; similar to lipid-associated family protein [Arabidopsis thaliana] (TAIR:AT2G22170.1); similar to dehydration stress-induced protein [Brassica napus] (GB:AAK01359.1); contains InterPro domain Lipoxygenase, LH2; (InterPro:IPR001024); contains InterPro domain Lipase/lipooxygenase, PLAT/LH2; (InterPro:IPR008976)\\
## Solyc03g098060 & NA & NA\\
## Solyc03g112450 & AT5G05670 & signal recognition particle binding; similar to signal recognition particle binding [Arabidopsis thaliana] (TAIR:AT2G18770.1); similar to AAA ATPase; Small GTP-binding protein domain [Medicago truncatula] (GB:ABE88783.1); contains domain SIGNAL RECOGNITION PARTICLE RECEPTOR BETA SUBUNIT RELATED (PTHR19326:SF4); contains domain FAMILY NOT NAMED (PTHR19326); contains domain no description (G3D.3.40.50.300); contains domain P-loop containing nucleoside triphosphate hydrolases (SSF52540)\\
## Solyc03g112500 & AT5G40390 & Encodes a protein which might be involved in the formation of verbascose. A T-DNA insertion mutant was shown to have a decreased amount of verbascose (as well as mannitol) whereas the levels of raffinose and stachyose remained unchanged.\\
## Solyc03g112540 & AT5G50130 & short-chain dehydrogenase/reductase (SDR) family protein; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT4G24050.1); similar to Short-chain dehydrogenase/reductase SDR [Medicago truncatula] (GB:ABE79697.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## \addlinespace
## Solyc03g113250 & AT1G69850 & Encodes an inducible component of low-affinity nitrate uptake. mRNA found primarily in root hairs and the epidermis of roots.\\
## Solyc03g114390 & AT5G23100 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G25640.1); similar to Os05g0577100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056405.1); similar to Os01g0642600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043690.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAB90468.1); contains InterPro domain Protein of unknown function DUF617, plant; (InterPro:IPR006460)\\
## Solyc03g114890 & AT5G15630 & Encodes a member of the COBRA family, similar to phytochelatin synthetase. Involved in secondary cell wall biosynthesis. Mutants make smaller plants with reduced levels of cellulose and cell wall sugars.\\
## Solyc03g116530 & AT1G80160 & lactoylglutathione lyase family protein / glyoxalase I family protein; similar to lactoylglutathione lyase [Arabidopsis thaliana] (TAIR:AT1G15380.2); similar to Glyoxalase/bleomycin resistance protein/dioxygenase [Medicago truncatula] (GB:ABD28405.1); contains InterPro domain Glyoxalase/extradiol ring-cleavage dioxygenase; (InterPro:IPR011588)\\
## Solyc04g009690 & NA & NA\\
## \addlinespace
## Solyc04g009890 & NA & NA\\
## Solyc04g018000 & NA & NA\\
## Solyc04g049800 & NA & NA\\
## Solyc04g054220 & NA & NA\\
## Solyc04g064960 & NA & NA\\
## \addlinespace
## Solyc04g071070 & NA & NA\\
## Solyc04g072110 & NA & NA\\
## Solyc04g074810 & NA & NA\\
## Solyc04g077170 & NA & NA\\
## Solyc04g078560 & AT4G06744 & leucine-rich repeat family protein / extensin family protein; similar to leucine-rich repeat family protein [Arabidopsis thaliana] (TAIR:AT3G19320.1); similar to Leucine-rich repeat, plant specific [Medicago truncatula] (GB:ABD32635.1); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090)\\
## \addlinespace
## Solyc04g079110 & NA & NA\\
## Solyc04g082050 & AT4G35750 & Rho-GTPase-activating protein-related; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G10210.1); similar to OSJNBa0084K11.12 [Oryza sativa (japonica cultivar-group)] (GB:CAD41068.2); similar to Cellular retinaldehyde-binding/triple function, C-terminal [Medicago truncatula] (GB:ABD28324.1); similar to Os04g0561200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053551.1); contains InterPro domain Cellular retinaldehyde-binding/triple function, C-terminal; (InterPro:IPR001251)\\
## Solyc04g082200 & NA & NA\\
## Solyc04g082710 & AT4G35350 & tracheary element vacuolar protein\\
## Solyc05g006410 & AT1G70150 & zinc finger (MYND type) family protein; similar to PREDICTED: similar to zinc finger, MYND domain containing 15 [Rattus norve (GB:XP_213338.3); similar to Os07g0481000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059640.1); contains InterPro domain Zinc finger, MYND-type; (InterPro:IPR002893)\\
## \addlinespace
## Solyc05g010060 & AT1G68740 & EXS family protein / ERD1/XPR1/SYG1 family protein; similar to PHO1 (PHOSPHATE 1) [Arabidopsis thaliana] (TAIR:AT3G23430.1); similar to putative PHO1-like protein [Oryza sativa (japonica cultivar-group)] (GB:BAD44936.1); similar to Os06g0493600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057682.1); contains InterPro domain SPX, N-terminal; (InterPro:IPR004331); contains InterPro domain EXS, C-terminal; (InterPro:IPR004342)\\
## Solyc05g051740 & NA & NA\\
## Solyc05g053070 & NA & NA\\
## Solyc05g053080 & NA & NA\\
## Solyc06g034260 & NA & NA\\
## \addlinespace
## Solyc06g036550 & NA & NA\\
## Solyc06g072220 & AT1G17860 & trypsin and protease inhibitor family protein / Kunitz family protein; similar to trypsin and protease inhibitor family protein / Kunitz family protein [Arabidopsis thaliana] (TAIR:AT1G73260.1); similar to Lemir [Lycopersicon esculentum] (GB:AAC63057.1); contains InterPro domain Proteinase inhibitor I3, Kunitz legume; (InterPro:IPR002160); contains InterPro domain Kunitz inhibitor ST1-like; (InterPro:IPR011065)\\
## Solyc06g075500 & AT3G45650 & proton-dependent oligopeptide transport (POT) family protein; similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT3G45680.1); similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT3G45660.1); similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT3G45710.1); similar to Major Facilitator Superfamily protein [Solanum demissum] (GB:AAT39312.2); contains InterPro domain TGF-beta receptor, type I/II extracellular region; (InterPro:IPR000109)\\
## Solyc06g076580 & NA & NA\\
## Solyc06g083740 & NA & NA\\
## \addlinespace
## Solyc07g005680 & AT4G30610 & Encodes a secreted glycosylated serine carboxypeptidase with broad substrate preference that is involved in brassinosteroid signalling via BRI1. It is proteolytically processed in vivo by a separate as yet unidentified protease.\\
## Solyc07g006040 & NA & NA\\
## Solyc07g007160 & NA & NA\\
## Solyc07g021710 & NA & NA\\
## Solyc07g026620 & NA & NA\\
## \addlinespace
## Solyc07g032340 & NA & NA\\
## Solyc07g042050 & NA & NA\\
## Solyc07g054340 & NA & NA\\
## Solyc07g056110 & AT1G55730 & member of Low affinity calcium antiporter CAX2 family\\
## Solyc07g056360 & NA & NA\\
## \addlinespace
## Solyc07g063290 & NA & NA\\
## Solyc08g005720 & NA & NA\\
## Solyc08g005870 & NA & NA\\
## Solyc08g007270 & AT4G16780 & ATHB-2 (Homeobox-leucine zipper protein HAT4); DNA binding / transcription factor; Identical to Homeobox-leucine zipper protein HAT4 (Homeodomain-leucine zipper protein HAT4) (HD-ZIP protein 4) (Homeodomain transcription factor ATHB-2) (HD-ZIP protein ATHB-2) (HAT4) [Arabidopsis Thaliana] (GB:Q05466); similar to HAT2, transcription factor [Arabidopsis thaliana] (TAIR:AT5G47370.1); similar to hypothetical protein [Capsella rubella] (GB:CAB96199.1); contains InterPro domain Homeodomain-related; (InterPro:IPR012287); contains InterPro domain Homeobox; (InterPro:IPR001356); contains InterPro domain Leucine zipper, homeobox-associated; (InterPro:IPR003106); contains InterPro domain Homeodomain-like; (InterPro:IPR009057); contains InterPro domain Helix-turn-helix motif, lambda-like repressor; (InterPro:IPR000047); contains InterPro domain HD-ZIP protein, N-terminal; (InterPro:IPR006712)\\
## Solyc08g007290 & NA & NA\\
## \addlinespace
## Solyc08g015840 & NA & NA\\
## Solyc08g066900 & NA & NA\\
## Solyc08g077810 & NA & NA\\
## Solyc09g009420 & NA & NA\\
## Solyc09g031830 & ATCG01280 & Identical to Protein ycf2 (ycf2-B) [Arabidopsis Thaliana] (GB:P56786); similar to hypothetical chloroplast RF2 [Vitis vinifera] (GB:YP_567121.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41290.1); similar to hypothetical chloroplast RF2 [Gossypium hirsutum] (GB:YP_538978.1); contains InterPro domain Chloroplast Ycf2; (InterPro:IPR008543); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## \addlinespace
## Solyc09g047860 & NA & NA\\
## Solyc09g083280 & AT5G43700 & Auxin inducible protein similar to transcription factors.\\
## Solyc09g090390 & NA & NA\\
## Solyc09g097870 & NA & NA\\
## Solyc10g005400 & AT1G14520 & Encodes MIOX1. Belongs to myo-inositol oxygenase gene family.\\
## \addlinespace
## Solyc10g005570 & NA & NA\\
## Solyc10g007830 & AT2G42800 & leucine-rich repeat family protein; similar to TMM (TOO MANY MOUTHS), protein binding [Arabidopsis thaliana] (TAIR:AT1G80080.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAS72353.1); similar to putative leucine-rich repeat protein [Oryza sativa (japonica cultivar-group)] (GB:AAT47071.1); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090)\\
## Solyc10g008120 & NA & NA\\
## Solyc10g009380 & NA & NA\\
## Solyc10g079220 & NA & NA\\
## \addlinespace
## Solyc10g079590 & NA & NA\\
## Solyc10g079600 & AT3G57040 & response regulator ARR9, A two-component response regulator-like protein with a receiver domain with a conserved aspartate residue and a possible phosphorylation site and at the N-terminal half. Appears to interact with histidine kinase like genes ATHP3 and ATHP2\\
## Solyc10g083380 & NA & NA\\
## Solyc10g083940 & AT2G39210 & nodulin family protein; similar to nodulin family protein [Arabidopsis thaliana] (TAIR:AT2G28120.1); similar to putative nodule-specific protein [Oryza sativa (japonica cultivar-group)] (GB:AAO37543.1); similar to nitrate and chloride transporter [Glycine max] (GB:AAW51884.1); similar to putative nodule-specific protein [Oryza sativa (japonica cultivar-group)] (GB:BAC83908.1); contains InterPro domain Nodulin-like; (InterPro:IPR010658)\\
## Solyc11g013470 & NA & NA\\
## \addlinespace
## Solyc11g017110 & NA & NA\\
## Solyc11g020670 & NA & NA\\
## Solyc11g068450 & AT2G30330 & GCN5L1 family protein; Identical to GCN5-like protein 1 (RT14 protein homolog) [Arabidopsis Thaliana] (GB:O22929); similar to Os11g0112300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065567.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABA91156.1); contains InterPro domain GCN5-like 1; (InterPro:IPR009395)\\
## Solyc11g069980 & AT1G60500 & dynamin family protein; similar to dynamin family protein [Arabidopsis thaliana] (TAIR:AT1G60530.1); similar to OSIGBa0103I21.1 [Oryza sativa (indica cultivar-group)] (GB:CAH65868.1); similar to Os03g0260000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049617.1); similar to Dynamin central re (GB:ABE80642.1); contains InterPro domain Dynamin GTPase effector; (InterPro:IPR003130); contains InterPro domain Dynamin central region; (InterPro:IPR000375); contains InterPro domain Dynamin; (InterPro:IPR001401)\\
## Solyc11g073010 & NA & NA\\
## \addlinespace
## Solyc12g006260 & NA & NA\\
## Solyc12g007090 & AT5G19540 & similar to Os08g0387500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061714.1); similar to unknown [Striga asiatica] (GB:ABE66393.1)\\
## Solyc12g008660 & AT2G19810 & zinc finger (CCCH-type) family protein; similar to zinc finger (CCCH-type) family protein [Arabidopsis thaliana] (TAIR:AT4G29190.1); similar to Zinc finger, CCCH-type [Medicago truncatula] (GB:ABE91976.1); contains InterPro domain Zinc finger, CCCH-type; (InterPro:IPR000571)\\
## Solyc12g035590 & ATCG01110 & Encodes the 49KDa plastid NAD(P)H dehydrogenase subunit H protein. Its transcription is regulated by an ndhF-specific plastid sigma factor, SIG4.\\
## Solyc12g044930 & NA & NA\\
## Solyc12g070130 & NA & NA\\
## \bottomrule
## \end{tabular}Cluster 26
clusterVis(26)## Using gene as id variables
clusterVis_PCA(26)
clusterVis_line(26)## Using gene, curated as id variables
#clusterGO(26)
y <- genesInClust(26, data.val2, annotation) ## [1] 72kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc01g008850 & AT2G26980 & encodes a serine-threonine protein kinase whose expression increases in response to abscisic acid, cold, drought, high salt, and wounding conditions. The gene is expressed in developing seeds and seedlings. Lines carrying a T-DNA insertions have reduced germination efficiency and expression of cold, high-salt, and abscisic acid marker genes are altered, but not drought-response markers.\\
## Solyc01g010190 & NA & NA\\
## Solyc01g097230 & NA & NA\\
## Solyc01g097510 & AT2G38760 & Annexins are calcium binding proteins that are localized in the cytoplasm. When cytosolic Ca2+ increases, they relocate to the plasma membrane.\\
## Solyc01g104350 & NA & NA\\
## \addlinespace
## Solyc01g109460 & AT3G18830 & This gene encodes a plasma membrane-localized polyol/cyclitol/monosaccharide-H+-symporter. The AtPLT5 symporter is able to catalyze the energy-dependent membrane passage of a wide range of linear polyols (three to six carbon backbone), of cyclic polyols (<i>myo</i>-inositol), and of numerous monosaccharides, including pyranose ring-forming and furanose ring-forming hexoses and pentoses. This gene belongs to a monosaccharide transporter-like (MST-like) superfamily.\\
## Solyc02g063380 & NA & NA\\
## Solyc02g068030 & NA & NA\\
## Solyc02g068900 & AT4G19880 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G45020.1); similar to Glutathione S-transferase, C-terminal-like [Medicago truncatula] (GB:ABC75353.1); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Glutathione S-transferase, C-terminal-like; (InterPro:IPR010987); contains InterPro domain Glutathione S-transferase, C-terminal; (InterPro:IPR004046)\\
## Solyc02g071800 & NA & NA\\
## \addlinespace
## Solyc02g085170 & AT1G19450 & integral membrane protein, putative / sugar transporter family protein; Identical to Sugar transporter ERD6-like 4 [Arabidopsis Thaliana] (GB:Q93YP9;GB:Q9LN48); similar to integral membrane protein, putative [Arabidopsis thaliana] (TAIR:AT1G75220.1); similar to 10A19I.3 [Oryza sativa (japonica cultivar-group)] (GB:AAD39600.1); similar to Os05g0579000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056416.1); similar to integral membrane protein [Beta vulgaris] (GB:AAB53155.1); contains InterPro domain Sugar transporter; (InterPro:IPR003663); contains InterPro domain Sugar transporter superfamily; (InterPro:IPR005829); contains InterPro domain Major facilitator superfamily; (InterPro:IPR007114); contains InterPro domain General substrate transporter; (InterPro:IPR005828)\\
## Solyc02g086620 & NA & NA\\
## Solyc02g088940 & AT1G30820 & CTP synthase, putative / UTP--ammonia ligase, putative; similar to CTP synthase, putative / UTP--ammonia ligase, putative [Arabidopsis thaliana] (TAIR:AT2G34890.1); similar to EMB2742 (EMBRYO DEFECTIVE 2742), CTP synthase [Arabidopsis thaliana] (TAIR:AT3G12670.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G20320.2); similar to putative CTP synthetase [Oryza sativa (japonica cultivar-group)] (GB:BAD61286.1); similar to CTP synthase, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA99559.2); similar to CTP synthase [Medicago truncatula] (GB:ABE84419.1); contains InterPro domain CTP synthase; (InterPro:IPR004468); contains InterPro domain Glutamine amidotransferase class-I; (InterPro:IPR000991); contains InterPro domain Glutamine amidotransferase, class I, active site; (InterPro:IPR012998)\\
## Solyc02g089520 & NA & NA\\
## Solyc02g092680 & AT5G67360 & subtilisin-like protease that has been located in stem and siliques but not roots.\\
## \addlinespace
## Solyc02g093020 & AT3G50120 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G50150.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G50130.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G50170.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAD03197.1); similar to Os11g0543300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001068043.1); similar to Os04g0505400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053253.1); contains InterPro domain Protein of unknown function DUF247, plant; (InterPro:IPR004158)\\
## Solyc02g093890 & NA & NA\\
## Solyc02g094130 & AT3G27090 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G42050.1); similar to hypothetical protein [Citrus x paradisi] (GB:CAA04664.1); contains domain KELCH-RELATED PROTEINS (PTHR23230); contains domain no description (SM00767); contains domain SUBFAMILY NOT NAMED (PTHR23230:SF15)\\
## Solyc03g006620 & NA & NA\\
## Solyc03g033860 & NA & NA\\
## \addlinespace
## Solyc03g082540 & NA & NA\\
## Solyc03g112640 & AT5G63060 & transporter; similar to SEC14 cytosolic factor family protein / phosphoglyceride transfer family protein [Arabidopsis thaliana] (TAIR:AT4G08690.1); similar to Os02g0321500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046687.1); similar to Phosphatidylinositol transfer protein PDR16 and related proteins (ISS) [Ostreococcus tauri] (GB:CAL56738.1); contains InterPro domain Phosphatidylinositol transfer protein-like, N-terminal; (InterPro:IPR011074); contains InterPro domain Cellular retinaldehyde-binding/triple function, C-terminal; (InterPro:IPR001251)\\
## Solyc03g113770 & AT5G49970 & encodes the bifunctional pyridoxine (pyridoxamine) 5’-phosphate oxidase (PPOX)(EC 1.4.3.5) that is involved in the formation of pyridoxal 5'-phosphate (member of the vitamin B6 group)\\
## Solyc03g115500 & AT5G07830 & glycosyl hydrolase family 79 N-terminal domain-containing protein; Identical to Heparanase-like protein 1 precursor (EC 3.2.-.-) [Arabidopsis Thaliana] (GB:Q9FF10;GB:Q9SDA1); similar to glycosyl hydrolase family 79 N-terminal domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G61250.1); similar to Os03g0211700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049350.1); similar to putative heparanase [Hordeum vulgare subsp. vulgare] (GB:CAD42650.1); similar to Os12g0578400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067122.1); contains InterPro domain Glycoside hydrolase family 79, N-terminal; (InterPro:IPR005199)\\
## Solyc03g122350 & NA & NA\\
## \addlinespace
## Solyc04g014730 & AT1G12050 & fumarylacetoacetase, putative; similar to fumarylacetoacetase [Medicago truncatula] (GB:ABD33010.1); similar to Os02g0196800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046195.1); contains InterPro domain Fumarylacetoacetate (FAA) hydrolase; (InterPro:IPR002529); contains InterPro domain Fumarylacetoacetase; (InterPro:IPR005959)\\
## Solyc04g015090 & NA & NA\\
## Solyc04g074430 & AT4G08950 & phosphate-responsive protein, putative (EXO); similar to PHI-1 (PHOSPHATE-INDUCED 1) [Arabidopsis thaliana] (TAIR:AT1G35140.1); similar to phi-1 [Nicotiana tabacum] (GB:BAA33810.1); contains InterPro domain Phosphate-induced protein 1 conserved region; (InterPro:IPR006766)\\
## Solyc04g074850 & AT5G65380 & ripening-responsive protein, putative; similar to antiporter [Arabidopsis thaliana] (TAIR:AT5G10420.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT5G44050.1); similar to ripening regulated protein DDTFR18 [Lycopersicon esculentum] (GB:AAG49032.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## Solyc04g074880 & NA & NA\\
## \addlinespace
## Solyc04g076990 & AT1G09970 & leucine-rich repeat transmembrane protein kinase, putative; similar to IKU2 (HAIKU2), ATP binding / protein kinase [Arabidopsis thaliana] (TAIR:AT3G19700.1); similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT5G49660.1); similar to HSL1 (HAESA-LIKE 1), ATP binding / kinase/ protein serine/threonine kinase [Arabidopsis thaliana] (TAIR:AT1G28440.1); similar to leucine-rich repeat receptor-like protein kinase [Pyrus pyrifolia] (GB:AAT28309.1); similar to Leucine Rich Repeat family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA99940.1); similar to clavata-like receptor [Picea glauca] (GB:ABF73316.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc04g077720 & AT1G65550 & xanthine/uracil permease family protein; Identical to Putative nucleobase-ascorbate transporter 10 (AtNAT10) (NAT10) [Arabidopsis Thaliana] (GB:O04472); similar to xanthine/uracil permease family protein [Arabidopsis thaliana] (TAIR:AT5G25420.1); similar to root uracil permease 1 [Oryza sativa (japonica cultivar-group)] (GB:CAJ84113.1); similar to Os02g0741800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048084.1); contains InterPro domain Xanthine/uracil/vitamin C permease; (InterPro:IPR006043)\\
## Solyc04g079030 & NA & NA\\
## Solyc04g079050 & NA & NA\\
## Solyc05g007890 & NA & NA\\
## \addlinespace
## Solyc05g008290 & AT1G23010 & Encodes a protein with multicopper oxidase activity.\\
## Solyc05g008840 & NA & NA\\
## Solyc05g012280 & NA & NA\\
## Solyc05g013470 & AT3G26590 & MATE efflux family protein; similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G12950.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT5G38030.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G23300.1); similar to integral membrane protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD87151.1); similar to Os08g0550200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062445.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## Solyc05g013560 & NA & NA\\
## \addlinespace
## Solyc05g054370 & AT3G06810 & acyl-CoA dehydrogenase-related; similar to IVD (ISOVALERYL-COA-DEHYDROGENASE) [Arabidopsis thaliana] (TAIR:AT3G45300.1); similar to Acad10 protein [Mus musculus] (GB:AAH27825.1); similar to PREDICTED: similar to acyl-Coenzyme A dehydrogenase family, member 10 [Bos taurus] (GB:XP_588758.2); similar to acyl-Coenzyme A dehydrogenase family, member 10 [Mus musculus] (GB:NP_082313.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Aminoglycoside phosphotransferase; (InterPro:IPR002575); contains InterPro domain Acyl-CoA dehydrogenase, middle and N-terminal; (InterPro:IPR009100); contains InterPro domain Acyl-CoA dehydrogenase C-terminal-like; (InterPro:IPR009075); contains InterPro domain Acyl-CoA dehydrogenase, central region; (InterPro:IPR006091); contains InterPro domain Acyl-CoA dehydrogenase, type 1; (InterPro:IPR006090); contains InterPro domain Acyl-CoA dehydrogenase, type1/2, C-terminal; (InterPro:IPR013764)\\
## Solyc06g005560 & AT2G39700 & putative expansin. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio). Involved in the formation of nematode-induced syncytia in roots of Arabidopsis thaliana.\\
## Solyc06g053620 & AT1G08650 & Encodes a phosphoenolpyruvate carboxylase kinase that is expressed at highest levels in leaves. Expression is induced by light.\\
## Solyc06g053870 & AT2G26640 & beta-ketoacyl-CoA synthase, putative; Identical to 3-ketoacyl-CoA synthase 11 (EC 2.3.1.-) (EC 2.3.1.119) (KCS-11) (Very- long-chain fatty acid condensing enzyme 11) (VLCFA condensing enzyme 11) (KCS11) [Arabidopsis Thaliana] (GB:O48780); similar to beta-ketoacyl-CoA synthase, putative [Arabidopsis thaliana] (TAIR:AT5G43760.1); similar to beta-ketoacyl-CoA synthase, putative [Arabidopsis thaliana] (TAIR:AT1G04220.1); similar to very-long-chain fatty acid condensing enzyme, putative [Arabidopsis thaliana] (TAIR:AT1G19440.1); similar to fatty acid elongase 1-like protein [Limnanthes douglasii] (GB:AAG28600.1); similar to beta-ketoacyl-CoA-synthase [Marchantia polymorpha] (GB:AAO48425.1); similar to putative fatty acid elongase [Zea mays] (GB:CAC01441.1); contains InterPro domain FAE1/Type III polyketide synthase-like protein; (InterPro:IPR013601); contains InterPro domain Very-long-chain 3-ketoacyl-CoA synthase; (InterPro:IPR012392); contains InterPro domain Chalcone and stilbene synthases, C-terminal; (InterPro:IPR012328)\\
## Solyc06g068620 & NA & NA\\
## \addlinespace
## Solyc06g082210 & NA & NA\\
## Solyc06g082500 & AT1G06890 & transporter-related; similar to transporter-related [Arabidopsis thaliana] (TAIR:AT2G28315.1); similar to Os05g0168700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054756.1); similar to Os01g0167500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042121.1); similar to putative glucose-6-phosphate/phosphate-tranlocat or [Oryza sativa] (GB:BAB41206.1); contains InterPro domain Protein of unknown function DUF250; (InterPro:IPR004853)\\
## Solyc07g007330 & NA & NA\\
## Solyc07g014670 & NA & NA\\
## Solyc07g027020 & AT3G13690 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT1G55200.1); similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G56790.1); similar to Os01g0602800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043500.1); similar to dual-specific kinase DSK1-like [Oryza sativa (japonica cultivar-group)] (GB:BAD52649.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719)\\
## \addlinespace
## Solyc07g042390 & AT5G20740 & invertase/pectin methylesterase inhibitor family protein; similar to invertase/pectin methylesterase inhibitor family protein [Arabidopsis thaliana] (TAIR:AT4G25260.1); similar to invertase/pectin methylesterase inhibitor family protein [Arabidopsis thaliana] (TAIR:AT1G62770.1); similar to putative ripening-related protein [Vitis vinifera] (GB:CAB85625.1); contains InterPro domain Plant invertase/pectin methylesterase inhibitor; (InterPro:IPR007186); contains InterPro domain Pectinesterase inhibitor; (InterPro:IPR006501)\\
## Solyc07g043660 & AT2G17650 & AMP-dependent synthetase and ligase family protein; similar to AMP-dependent synthetase and ligase family protein [Arabidopsis thaliana] (TAIR:AT1G20560.1); similar to Putative AMP-binding protein [Oryza sativa (japonica cultivar-group)] (GB:AAN05508.1); similar to AMP-binding enzyme, putative [Medicago truncatula] (GB:ABE77669.1); similar to Os03g0133500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048876.1); contains InterPro domain AMP-dependent synthetase and ligase; (InterPro:IPR000873)\\
## Solyc07g064770 & NA & NA\\
## Solyc08g067940 & NA & NA\\
## Solyc08g069020 & NA & NA\\
## \addlinespace
## Solyc08g075350 & NA & NA\\
## Solyc08g079800 & NA & NA\\
## Solyc09g009830 & AT3G52720 & carbonic anhydrase family protein; similar to carbonic anhydrase family protein [Arabidopsis thaliana] (TAIR:AT1G08080.1); similar to Os02g0533300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047030.1); similar to OJ000126_13.1 [Oryza sativa (japonica cultivar-group)] (GB:CAD40596.2); contains InterPro domain Carbonic anhydrase, eukaryotic; (InterPro:IPR001148)\\
## Solyc09g014450 & NA & NA\\
## Solyc09g014970 & NA & NA\\
## \addlinespace
## Solyc09g015140 & NA & NA\\
## Solyc10g008730 & NA & NA\\
## Solyc10g076760 & AT3G09010 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT1G16670.1); similar to putative receptor ser/thr protein [Oryza sativa (japonica cultivar-group)] (GB:AAP06827.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc10g085950 & AT2G37330 & Encodes an ABC transporter-like protein, without an ATPase domain, required for aluminum (Al) resistance/tolerance and may function to redistribute accumulated Al away from sensitive tissues in order to protect the growing root from the toxic effects of Al.\\
## Solyc11g010340 & NA & NA\\
## \addlinespace
## Solyc11g011400 & NA & NA\\
## Solyc11g018690 & AT1G71960 & ABC transporter family protein; Identical to White-brown complex homolog protein 26 (WBC26) [Arabidopsis Thaliana] (GB:Q84TH5;GB:Q949Y4;GB:Q9C8W6); similar to ABC transporter family protein [Arabidopsis thaliana] (TAIR:AT1G31770.1); similar to ABC transporter protein, putative [Oryza sativa (japonica cultivar-group)] (GB:AAX96020.1); contains InterPro domain ABC-2 type transporter; (InterPro:IPR013525); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain ABC transporter related; (InterPro:IPR003439)\\
## Solyc11g020290 & NA & NA\\
## Solyc11g056300 & NA & NA\\
## Solyc11g068370 & AT1G08320 & DNA binding; similar to bZIP family transcription factor [Arabidopsis thaliana] (TAIR:AT5G06839.1); similar to Os01g0859500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044868.1); similar to TGACG-sequence-specific DNA-binding protein TGA-2.1, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95838.1); similar to Os12g0152900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066179.1); contains InterPro domain bZIP transcription factor, bZIP_1; (InterPro:IPR011616); contains InterPro domain Basic-leucine zipper (bZIP) transcription factor; (InterPro:IPR004827)\\
## \addlinespace
## Solyc11g070120 & AT2G19830 & SNF7 family protein; similar to SNF7 family protein [Arabidopsis thaliana] (TAIR:AT4G29160.3); similar to Os09g0267600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062723.1); similar to SNF7 family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95683.2); similar to Os06g0608500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058040.1); contains InterPro domain Snf7; (InterPro:IPR005024)\\
## Solyc12g089220 & AT1G75380 & wound-responsive protein-related; similar to wound-responsive family protein [Arabidopsis thaliana] (TAIR:AT1G19660.2); similar to wound inducive gene [Nicotiana tabacum] (GB:BAA95791.1); contains domain no description (G3D.4.10.860.10)\\
## \bottomrule
## \end{tabular}Cluster 27
clusterVis(27)## Using gene as id variables
clusterVis_PCA(27)
clusterVis_line(27)## Using gene, curated as id variables
#clusterGO(27)
y <- genesInClust(27, data.val2, annotation) ## [1] 126kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g085070 & AT4G37760 & squalene monooxygenase, putative / squalene epoxidase, putative; similar to XF1, oxidoreductase [Arabidopsis thaliana] (TAIR:AT1G58440.1); similar to squalene monooxygenase, putative / squalene epoxidase, putative [Arabidopsis thaliana] (TAIR:AT2G22830.1); similar to squalene monooxygenase [Datura innoxia] (GB:AAY22200.1); similar to squalene monooxygenase 2 [Medicago truncatula] (GB:CAD23248.1); similar to putative squalene epoxidase [Lycopersicon esculentum] (GB:AAQ13595.1); contains InterPro domain NAD-binding site; (InterPro:IPR000205); contains InterPro domain Squalene epoxidase; (InterPro:IPR013698); contains InterPro domain FAD dependent oxidoreductase; (InterPro:IPR006076); contains InterPro domain Aromatic-ring hydroxylase; (InterPro:IPR003042)\\
## Solyc01g008800 & NA & NA\\
## Solyc01g009240 & AT5G20950 & glycosyl hydrolase family 3 protein; similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT3G62710.1); similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT5G20940.1); similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT5G04885.1); similar to beta-D-glucan exohydrolase [Nicotiana tabacum] (GB:BAA33065.1); similar to beta-D-glucosidase [Tropaeolum majus] (GB:CAA07070.1); similar to beta-D-glucosidase [Gossypium hirsutum] (GB:AAQ17461.1); contains InterPro domain Glycoside hydrolase, family 3, C-terminal; (InterPro:IPR002772); contains InterPro domain Glycoside hydrolase, family 3, N-terminal; (InterPro:IPR001764)\\
## Solyc01g073700 & NA & NA\\
## Solyc01g087770 & NA & NA\\
## \addlinespace
## Solyc01g091180 & AT1G32450 & proton-dependent oligopeptide transport (POT) family protein; similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT5G19640.1); similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT4G21680.1); similar to TGF-beta receptor, type I/II extracellular re (GB:ABD32535.1); similar to TGF-beta receptor, type I/II extracellular re (GB:ABE93051.1); similar to transporter, major facilitator family, putative [Medicago truncatula] (GB:ABE88005.1); contains InterPro domain TGF-beta receptor, type I/II extracellular region; (InterPro:IPR000109)\\
## Solyc01g096960 & NA & NA\\
## Solyc01g098590 & AT3G05170 & phosphoglycerate/bisphosphoglycerate mutase family protein; similar to phosphoglycerate/bisphosphoglycerate mutase family protein [Arabidopsis thaliana] (TAIR:AT1G08940.1); similar to Os05g0141700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054606.1); similar to Os06g0109000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056573.1); similar to unknown [Streptomyces murayamaensis] (GB:AAO65326.1); contains InterPro domain Phosphoglycerate/bisphosphoglycerate mutase; (InterPro:IPR001345); contains InterPro domain Phosphoglycerate mutase; (InterPro:IPR013078)\\
## Solyc01g098650 & AT1G54790 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT3G05180.1); similar to Lipolytic enzyme, G-D-S-L [Medicago truncatula] (GB:ABD32376.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc01g108070 & AT4G34020 & DJ-1 family protein; similar to DJ-1 family protein [Arabidopsis thaliana] (TAIR:AT1G53280.1); similar to 'unknown protein, similar to DJ-1/PfpI family, PF01965' [Oryza sativa (japonica cultivar-group)] (GB:AAT69656.1); contains InterPro domain DJ-1; (InterPro:IPR006287); contains InterPro domain ThiJ/PfpI; (InterPro:IPR002818)\\
## \addlinespace
## Solyc01g111500 & AT4G38620 & Encodes a R2R3 MYB protein which is involved in the response to UV-B. It functions as a repressor of target gene expression. One of its target genes encodes cinnamate 4-hydroxylase; mutants accumulate sinapate esters in their leaves.\\
## Solyc02g068320 & AT1G14130 & 2-oxoglutarate-dependent dioxygenase, putative; similar to 2-oxoglutarate-dependent dioxygenase, putative [Arabidopsis thaliana] (TAIR:AT1G14120.1); similar to 2-oxoacid-dependent dioxygenase [Prunus mume] (GB:BAE48659.1); contains InterPro domain 2OG-Fe(II) oxygenase; (InterPro:IPR005123)\\
## Solyc02g069290 & NA & NA\\
## Solyc02g070950 & AT1G29930 & Subunit of light-harvesting complex II (LHCII),which absorbs light and transfers energy to the photosynthetic reaction center.\\
## Solyc02g071060 & AT4G18220 & purine permease family protein; similar to ATPUP10 (Arabidopsis thaliana purine permease 10), purine transporter [Arabidopsis thaliana] (TAIR:AT4G18210.1); similar to Os02g0689200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047783.1); similar to putative purine permease [Oryza sativa (japonica cultivar-group)] (GB:BAD07671.1); contains InterPro domain Protein of unknown function DUF250; (InterPro:IPR004853)\\
## \addlinespace
## Solyc02g072030 & NA & NA\\
## Solyc02g078240 & NA & NA\\
## Solyc02g079010 & NA & NA\\
## Solyc02g082850 & AT4G35640 & Encodes a cytosolic serine O-acetyltransferase involved in sulfur assimilation and cysteine biosynthesis. Expressed in the vascular system. Expression is induced in both roots and shoots under sulfur-starved conditions.\\
## Solyc02g085600 & AT4G36710 & scarecrow transcription factor family protein; similar to scarecrow-like transcription factor 6 (SCL6) [Arabidopsis thaliana] (TAIR:AT4G00150.1); similar to SCARECROW-like protein [Brassica napus] (GB:AAT75161.1); contains InterPro domain GRAS transcription factor; (InterPro:IPR005202)\\
## \addlinespace
## Solyc02g086930 & AT3G01470 & Encodes a homeodomain leucine zipper class I (HD-Zip I) transcriptional activator involved in leaf development.\\
## Solyc02g087010 & AT1G70280 & NHL repeat-containing protein; similar to NHL repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G23880.1); similar to Os06g0269300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057356.1); similar to NHL repeat [Medicago truncatula] (GB:ABE85368.1); similar to Os02g0730400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048013.1); contains InterPro domain NHL repeat; (InterPro:IPR001258)\\
## Solyc02g093600 & AT1G53540 & 17.6 kDa class I small heat shock protein (HSP17.6C-CI) (AA 1-156); Identical to 17.6 kDa class I heat shock protein (HSP 17.6) (HSP17.6) [Arabidopsis Thaliana] (GB:P13853;GB:Q9C8L3); similar to ATHSP17.4 (Arabidopsis thaliana heat shock protein 17.4) [Arabidopsis thaliana] (TAIR:AT3G46230.1); similar to low molecular weight heat-shock protein [Brassica rapa] (GB:AAB72109.1); contains InterPro domain HSP20-like chaperone; (InterPro:IPR008978); contains InterPro domain Heat shock protein Hsp20; (InterPro:IPR002068)\\
## Solyc02g094630 & AT1G12930 & importin-related; similar to transportin-SR-related [Arabidopsis thaliana] (TAIR:AT5G62600.1); similar to Os11g0543700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001068046.1); similar to importin, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA94152.1); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain Exportin 1-like; (InterPro:IPR013598)\\
## Solyc03g005250 & AT3G22890 & encodes ATP sulfurylase, the first enzyme in the sulfate assimilation pathway of Arabidopsis.\\
## \addlinespace
## Solyc03g005660 & NA & NA\\
## Solyc03g006360 & AT1G28330 & dormancy-associated protein (DRM1)\\
## Solyc03g006980 & AT2G28100 & Encodes a protein with α-fucosidase activity. The activity was assessed on 2'-fucosyl-lactitol. AtFUC1 was not able to act on XXFG substrates, at least when heterologously expressed in <i>Pichia pastoris</i>. The enzyme has been postulated to act on fucosylated substrates other than xyloglucan oligosaccharides. was shown (<i>Pichia pastoris</i>) to hydrolyze fucose in 3- and 4-linkage , hence was characterized as alpha-L-3,4-fucosidase\\
## Solyc03g007530 & AT3G59140 & member of MRP subfamily\\
## Solyc03g044350 & NA & NA\\
## \addlinespace
## Solyc03g053090 & NA & NA\\
## Solyc03g080060 & NA & NA\\
## Solyc03g082720 & AT4G27740 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G27745.1); similar to Yippee-like protein At4g27740, putative [Oryza sativa (japonica cultivar-group)] (GB:ABA98518.1); similar to Os12g0484700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066778.1); contains InterPro domain Yippee-like protein; (InterPro:IPR004910)\\
## Solyc03g083770 & AT5G62360 & invertase/pectin methylesterase inhibitor family protein; similar to invertase/pectin methylesterase inhibitor family protein / DC 1.2 homolog (FL5-2I22) [Arabidopsis thaliana] (TAIR:AT5G62350.1); similar to pectin methylesterase inhibitor isoform [Solanum phureja] (GB:ABG49144.1); contains InterPro domain Plant invertase/pectin methylesterase inhibitor; (InterPro:IPR007186); contains InterPro domain Pectinesterase inhibitor; (InterPro:IPR006501)\\
## Solyc03g111610 & AT3G48420 & haloacid dehalogenase-like hydrolase family protein; similar to haloacid dehalogenase-like hydrolase family protein [Arabidopsis thaliana] (TAIR:AT4G39970.1); similar to Os03g0565200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050499.1); similar to Putative hydrolase [Oryza sativa (japonica cultivar-group)] (GB:AAK53865.1); contains InterPro domain HAD-superfamily hydrolase subfamily IA, variant 3; (InterPro:IPR006402); contains InterPro domain Haloacid dehalogenase-like hydrolase; (InterPro:IPR005834); contains InterPro domain Haloacid dehalogenase/epoxide hydrolase; (InterPro:IPR005833)\\
## \addlinespace
## Solyc03g113120 & NA & NA\\
## Solyc03g113920 & NA & NA\\
## Solyc03g115740 & AT5G07720 & galactosyl transferase GMA12/MNN10 family protein; Identical to Putative glycosyltransferase 3 (EC 2.4.-.-) (AtGT3) (GT3) [Arabidopsis Thaliana] (GB:Q9LF80); similar to galactosyl transferase GMA12/MNN10 family protein [Arabidopsis thaliana] (TAIR:AT1G74380.1); similar to galactosyl transferase GMA12/MNN10 family protein [Arabidopsis thaliana] (TAIR:AT1G18690.1); similar to putative glycosyltransferase [Nicotiana benthamiana] (GB:CAI11458.1); similar to putative glycosyltransferase [Solanum tuberosum] (GB:CAI11457.1); similar to putative glycosyltransferase [Lotus japonicus] (GB:CAI11456.1); contains InterPro domain Galactosyl transferase; (InterPro:IPR008630)\\
## Solyc03g116910 & AT1G15950 & Encodes a cinnamoyl CoA reductase. Involved in lignin biosynthesis.\\
## Solyc03g117200 & NA & NA\\
## \addlinespace
## Solyc03g117540 & AT2G07680 & member of MRP subfamily\\
## Solyc03g117980 & AT5G47910 & NADPH/respiratory burst oxidase protein D (RbohD).Interacts with AtrbohF gene to fine tune the spatial control of ROI production and hypersensitive response to cell in and around infection site.\\
## Solyc03g119150 & AT1G18170 & immunophilin / FKBP-type peptidyl-prolyl cis-trans isomerase family protein; similar to immunophilin / FKBP-type peptidyl-prolyl cis-trans isomerase family protein [Arabidopsis thaliana] (TAIR:AT1G73655.1); similar to hypothetical protein MtrDRAFT_AC139526g24v1 [Medicago truncatula] (GB:ABE80155.1); similar to Os03g0708500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051037.1); contains InterPro domain Peptidylprolyl isomerase, FKBP-type; (InterPro:IPR001179)\\
## Solyc03g121900 & NA & NA\\
## Solyc04g007410 & NA & NA\\
## \addlinespace
## Solyc04g009260 & NA & NA\\
## Solyc04g050570 & AT5G33370 & GDSL-motif lipase/hydrolase family protein; similar to ATLTL1/LTL1 (LI-TOLERANT LIPASE 1), carboxylic ester hydrolase [Arabidopsis thaliana] (TAIR:AT3G04290.1); similar to GSDL-motif lipase [Agave americana] (GB:AAS75127.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc04g058150 & NA & NA\\
## Solyc04g071050 & AT1G21320 & VQ motif-containing protein; similar to VQ motif-containing protein [Arabidopsis thaliana] (TAIR:AT1G21326.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAD28841.1); contains InterPro domain VQ; (InterPro:IPR008889)\\
## Solyc04g080260 & NA & NA\\
## \addlinespace
## Solyc04g080720 & AT1G27620 & transferase family protein; similar to transferase family protein [Arabidopsis thaliana] (TAIR:AT2G40230.1); similar to Os01g0382200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043090.1); similar to Os01g0104900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001041768.1); similar to putative hydroxyanthranilate hydroxycinnamoyltransferase 2 [Oryza sativa (japonica cultivar-group)] (GB:BAD68809.1); contains InterPro domain Transferase; (InterPro:IPR003480)\\
## Solyc04g082110 & AT4G38430 & Member of the RopGEF (guanine nucleotide exchange factor) family, containing the novel PRONE domain (plant-specific Rop nucleotide exchanger), which is exclusively active towards members of the Rop subfamily, also known as DUF315). Interacts with ROP1 but the whole protein lacks Rho guanyl-nucleotide exchange factor activity in vitro. The DUF315/PRONE domain is sufficient to confer RopGEF catalytic activity.\\
## Solyc05g005200 & AT1G23440 & pyrrolidone-carboxylate peptidase family protein; similar to pyrrolidone-carboxylate peptidase family protein [Arabidopsis thaliana] (TAIR:AT1G56700.2); similar to Os07g0639600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060416.1); similar to hypothetical protein DDBDRAFT_0189325 [Dictyostelium discoideum AX4] (GB:XP_647079.1); similar to Os09g0396300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063100.1); contains InterPro domain Peptidase C15, pyroglutamyl peptidase I; (InterPro:IPR000816)\\
## Solyc05g006610 & NA & NA\\
## Solyc05g006920 & AT1G69870 & proton-dependent oligopeptide transport (POT) family protein; similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT1G27080.1); similar to Os03g0687000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050937.1); similar to nitrate transporter NRT1-5 [Glycine max] (GB:BAB19760.1); similar to Os01g0913300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045170.1); contains InterPro domain TGF-beta receptor, type I/II extracellular region; (InterPro:IPR000109)\\
## \addlinespace
## Solyc05g008060 & AT1G70940 & A regulator of auxin efflux and involved in differential growth. PIN3 is expressed in gravity-sensing tissues, with PIN3 protein accumulating predominantly at the lateral cell surface. PIN3 localizes to the plasma membrane and to vesicles. In roots, PIN3 is expressed without pronounced polarity in tiers two and three of the columella cells, at the basal side of vascular cells, and to the lateral side of pericycle cells of the elongation zone. PIN3 overexpression inhibits root cell growth. Protein phosphorylation plays a role in PIN3 trafficking to the plasma membrane.\\
## Solyc05g008390 & AT2G01275 & protein binding / zinc ion binding; similar to zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] (TAIR:AT5G38070.1); similar to Os01g0121200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001041874.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD52455.1); contains InterPro domain RINGv; (InterPro:IPR011016); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc05g009890 & AT3G25700 & chloroplast nucleoid DNA-binding protein-related; similar to aspartyl protease family protein [Arabidopsis thaliana] (TAIR:AT2G42980.1); similar to Os02g0314600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046662.1); similar to Os01g0598600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043485.1); similar to unknow protein [Oryza sativa (japonica cultivar-group)] (GB:AAT38006.1); contains InterPro domain Peptidase A1, pepsin; (InterPro:IPR001461); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007)\\
## Solyc05g014380 & NA & NA\\
## Solyc05g015390 & AT1G67360 & rubber elongation factor (REF) family protein; Identical to REF/SRPP-like protein At1g67360 [Arabidopsis Thaliana] (GB:Q9FYF7); similar to rubber elongation factor (REF) protein-related [Arabidopsis thaliana] (TAIR:AT2G47780.1); similar to Stress-related protein (GB:Q9SW70); contains InterPro domain Rubber elongation factor; (InterPro:IPR008802)\\
## \addlinespace
## Solyc05g024410 & AT3G07720 & kelch repeat-containing protein; similar to kelch repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G48180.1); similar to putative D-protein [Oryza sativa (japonica cultivar-group)] (GB:BAD19903.1); similar to Os09g0249000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062670.1); contains InterPro domain Galactose oxidase, central; (InterPro:IPR011043); contains InterPro domain Kelch repeat; (InterPro:IPR006652)\\
## Solyc05g051660 & NA & NA\\
## Solyc05g051750 & NA & NA\\
## Solyc05g054480 & AT3G12110 & Encodes an actin that is expressed predominantly during reproductive development.\\
## Solyc06g006040 & NA & NA\\
## \addlinespace
## Solyc06g007140 & AT3G11170 & Chloroplastic enzyme responsible for the synthesis of 16:3 and 18:3 fatty acids from galactolipids, sulpholipids and phosphatidylglycerol. Uses ferredoxin as electron donor. Gene expression is induced by wounding in shoot and root. The wound-response in shoot is independent of jasmonic acid mediated pathway whereas the root response is mediated by jasmonic acid.\\
## Solyc06g049040 & AT2G40620 & bZIP transcription factor family protein; similar to bZIP transcription factor, putative [Arabidopsis thaliana] (TAIR:AT1G06850.1); similar to cAMP response element binding (CREB) protein [Medicago truncatula] (GB:ABE94130.1); contains InterPro domain Eukaryotic transcription factor, DNA-binding; (InterPro:IPR008917); contains InterPro domain bZIP transcription factor, bZIP_1; (InterPro:IPR011616); contains InterPro domain Basic-leucine zipper (bZIP) transcription factor; (InterPro:IPR004827)\\
## Solyc06g051380 & AT5G05570 & transducin family protein / WD-40 repeat family protein; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G35560.1); similar to Os07g0693700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060732.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAC75571.1); contains InterPro domain Synaptobrevin; (InterPro:IPR001388); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc06g051460 & NA & NA\\
## Solyc06g053360 & AT1G06050 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G10750.1); similar to START domain-containing protein [Poa pratensis] (GB:CAH10188.1); similar to Os08g0152600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061005.1); similar to START domain-containing protein [Poa pratensis] (GB:CAH10187.1); contains InterPro domain Protein of unknown function DUF1336; (InterPro:IPR009769)\\
## \addlinespace
## Solyc06g060820 & NA & NA\\
## Solyc06g068220 & AT1G52510 & hydrolase, alpha/beta fold family protein; similar to hydrolase, alpha/beta fold family protein [Arabidopsis thaliana] (TAIR:AT4G12830.1); similar to Alpha/beta hydrolase fold [Medicago truncatula] (GB:ABE77901.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073); contains InterPro domain Epoxide hydrolase; (InterPro:IPR000639); contains InterPro domain Alpha/beta hydrolase; (InterPro:IPR003089)\\
## Solyc06g075090 & AT2G28305 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G37210.1); similar to Conserved hypothetical protein 730 [Medicago truncatula] (GB:ABE89044.1); contains InterPro domain Conserved hypothetical protein 730; (InterPro:IPR005269)\\
## Solyc06g076350 & NA & NA\\
## Solyc06g083170 & NA & NA\\
## \addlinespace
## Solyc06g083390 & NA & NA\\
## Solyc07g005130 & AT4G31020 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G24320.1); similar to Esterase/lipase/thioesterase [Medicago truncatula] (GB:ABD32255.1); similar to Os02g0796600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048390.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379)\\
## Solyc07g005190 & AT2G24280 & serine carboxypeptidase S28 family protein; similar to serine carboxypeptidase S28 family protein [Arabidopsis thaliana] (TAIR:AT5G65760.1); similar to Os01g0767100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044360.1); similar to Os06g0647400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058206.1); similar to PREDICTED: similar to an (GB:XP_214993.2); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Peptidase S28; (InterPro:IPR008758)\\
## Solyc07g005400 & NA & NA\\
## Solyc07g006680 & NA & NA\\
## \addlinespace
## Solyc07g008240 & AT2G16060 & Encodes a class 1 nonsymbiotic hemoglobin induced by low oxygen levels with very high oxygen affinity. It is not likely to be a hemoglobin transporter because of its extremely high affinity for oxygen.\\
## Solyc07g052610 & AT3G21870 & CYCP2;1 (cyclin p2;1); cyclin-dependent protein kinase; similar to CYCP3,1 (cyclin p3,1), cyclin-dependent protein kinase [Arabidopsis thaliana] (TAIR:AT2G45080.1); similar to PREG-like protein [Picea mariana] (GB:AAC32127.1); contains InterPro domain Cyclin, N-terminal; (InterPro:IPR006671); contains InterPro domain Cyclin-like; (InterPro:IPR011028); contains InterPro domain Cyclin-related; (InterPro:IPR013763); contains InterPro domain Negative regulatory factor PREG; (InterPro:IPR012389)\\
## Solyc07g056440 & AT1G17180 & Encodes glutathione transferase belonging to the tau class of GSTs. Naming convention according to Wagner et al. (2002).\\
## Solyc07g065340 & AT3G13110 & Encodes a mitochondrial serine O-acetyltransferase involved in sulfur assimilation and cysteine biosynthesis. Expressed in the vascular system.\\
## Solyc08g006620 & NA & NA\\
## \addlinespace
## Solyc08g006770 & NA & NA\\
## Solyc08g066150 & NA & NA\\
## Solyc08g067590 & NA & NA\\
## Solyc08g076590 & NA & NA\\
## Solyc08g078370 & AT4G28706 & pfkB-type carbohydrate kinase family protein; similar to pfkB-type carbohydrate kinase family protein [Arabidopsis thaliana] (TAIR:AT5G43910.2); similar to Os08g0566400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062541.1); similar to Carbohydrate kinase, PfkB [Medicago truncatula] (GB:ABE82653.1); contains InterPro domain PfkB; (InterPro:IPR011611); contains InterPro domain Carbohydrate kinase, PfkB; (InterPro:IPR002173); contains InterPro domain Ribokinase; (InterPro:IPR002139)\\
## \addlinespace
## Solyc08g079600 & NA & NA\\
## Solyc08g082180 & AT1G01360 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G01026.1); similar to CAPIP1 [Capsicum annuum] (GB:AAT35532.1); contains domain Bet v1-like (SSF55961); contains domain no description (G3D.3.30.530.20)\\
## Solyc08g082640 & AT4G23990 & encodes a protein similar to cellulose synthase\\
## Solyc09g011640 & NA & NA\\
## Solyc09g011670 & AT3G53990 & universal stress protein (USP) family protein; similar to universal stress protein (USP) family protein / early nodulin ENOD18 family protein [Arabidopsis thaliana] (TAIR:AT3G03270.2); similar to ENOD18 protein [Vicia faba] (GB:CAC18558.1); contains InterPro domain Universal stress protein (Usp); (InterPro:IPR006015); contains InterPro domain UspA; (InterPro:IPR006016)\\
## \addlinespace
## Solyc09g014220 & AT3G54140 & proton-dependent oligopeptide transport (POT) family protein; similar to ATPTR2-B (NITRATE TRANSPORTER 1), transporter [Arabidopsis thaliana] (TAIR:AT2G02040.1); similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT1G62200.1); similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT5G01180.1); similar to LeOPT1 [Lycopersicon esculentum] (GB:AAD01600.1); similar to putative peptide transport protein [Oryza sativa (japonica cultivar-group)] (GB:BAD31819.1); similar to peptide transporter [Hordeum vulgare] (GB:AAC32034.1); contains InterPro domain TGF-beta receptor, type I/II extracellular region; (InterPro:IPR000109)\\
## Solyc09g059240 & NA & NA\\
## Solyc09g075810 & NA & NA\\
## Solyc09g075950 & AT2G32120 & HSP70T-2; ATP binding; similar to HSP70 (heat shock protein 70), ATP binding [Arabidopsis thaliana] (TAIR:AT3G12580.1); similar to Heat shock protein Hsp70 [Medicago truncatula] (GB:ABE91718.1); similar to Os03g0218500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049397.1); contains InterPro domain Heat shock protein Hsp70; (InterPro:IPR001023); contains InterPro domain Heat shock protein 70; (InterPro:IPR013126)\\
## Solyc09g091970 & AT2G21280 & A nuclear-encoded, plastid-targeted protein (AtSulA) whose overexpression causes severe yet stochastic plastid (shown in chloroplasts and leucoplasts) division defects. The protein does not appear to interact with either AtFtsZ proteins when studied in a yeast two-hybrid system.\\
## \addlinespace
## Solyc09g092160 & AT2G32810 & putative beta-galactosidase\\
## Solyc10g005000 & AT1G01110 & IQD18 (IQ-domain 18); similar to IQD17 (IQ-domain 17), calmodulin binding [Arabidopsis thaliana] (TAIR:AT4G00820.1); similar to putative SF16 protein [Oryza sativa (japonica cultivar-group)] (GB:AAV33309.1); similar to Os08g0115200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060851.1); similar to Os01g0833800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044716.1)\\
## Solyc10g005950 & AT5G47650 & ATNUDT2 (Arabidopsis thaliana Nudix hydrolase homolog 2); ADP-ribose diphosphatase/ NAD binding / hydrolase; Identical to Nudix hydrolase 2 (EC 3.6.1.-) (AtNUDT2) (ADP-ribose pyrophosphatase) (EC 3.6.1.13) (NADH pyrophosphatase) (EC 3.6.1.22) (NUDT2) [Arabidopsis Thaliana] (GB:Q94B74;GB:Q9FGJ2); similar to ATNUDT10 (ARABIDOPSIS THALIANA NUDIX HYDROLASE HOMOLOG 10), catalytic [Arabidopsis thaliana] (TAIR:AT4G25434.1); similar to hydrolase, NUDIX family protein [Brassica oleracea] (GB:ABD64992.1); contains InterPro domain NUDIX hydrolase; (InterPro:IPR000086); contains InterPro domain Anti-sense to fibroblast growth factor protein GFG; (InterPro:IPR003293)\\
## Solyc10g006660 & AT4G27280 & calcium-binding EF hand family protein; similar to PBP1 (PINOID-BINDING PROTEIN 1), calcium ion binding [Arabidopsis thaliana] (TAIR:AT5G54490.1); similar to Avr9/Cf-9 rapidly elicited protein 20 [Nicotiana tabacum] (GB:AAV92890.1); contains InterPro domain EF-Hand type; (InterPro:IPR011992); contains InterPro domain Calcium-binding EF-hand; (InterPro:IPR002048)\\
## Solyc10g006900 & AT4G27440 & light-dependent NADPH:protochlorophyllide oxidoreductase B\\
## \addlinespace
## Solyc10g017490 & NA & NA\\
## Solyc10g050890 & AT2G15620 & involved in the second step of nitrate assimilation\\
## Solyc10g074870 & AT2G38610 & KH domain-containing protein; similar to KH domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G08620.1); similar to hypothetical protein [Nicotiana tabacum] (GB:BAD06470.1); contains InterPro domain KH; (InterPro:IPR004087)\\
## Solyc10g081980 & NA & NA\\
## Solyc10g085340 & AT2G38330 & MATE efflux family protein; similar to MATE efflux protein-related [Arabidopsis thaliana] (TAIR:AT4G38380.1); similar to Os12g0106600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065941.1); similar to MATE efflux family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95621.2); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## \addlinespace
## Solyc11g007540 & AT5G04660 & encodes a protein with cytochrome P450 domain\\
## Solyc11g011780 & AT2G03820 & nonsense-mediated mRNA decay NMD3 family protein; similar to NMD3 family, putative [Medicago truncatula] (GB:ABE90145.1); contains InterPro domain Zinc finger, FYVE/PHD-type; (InterPro:IPR011011); contains InterPro domain NMD3; (InterPro:IPR007064)\\
## Solyc11g012440 & AT4G16490 & armadillo/beta-catenin repeat family protein; similar to armadillo/beta-catenin repeat family protein / U-box domain-containing protein [Arabidopsis thaliana] (TAIR:AT2G23140.1); similar to IMP dehydrogenase/GMP reductase [Medicago truncatula] (GB:ABE88245.1); contains InterPro domain Armadillo; (InterPro:IPR000225); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989)\\
## Solyc11g069730 & NA & NA\\
## Solyc11g073080 & NA & NA\\
## \addlinespace
## Solyc12g005400 & AT5G54250 & member of Cyclic nucleotide gated channel family, downstream component of the signaling pathways leading to HR resistance. mutant plants exhibit gene-for-gene disease resistance against avirulent Pseudomonas syringae despite the near-complete absence of the hypersensitive response (HR). Salicylic acid accumulation in dnd2 mutants is completely PAD4-independent.\\
## Solyc12g009580 & AT2G26580 & plant-specific transcription factor YABBY family protein; Identical to Axial regulator YABBY5 (YAB5) [Arabidopsis Thaliana] (GB:Q8GW46;GB:O48725); similar to YAB2 (YABBY 2), transcription factor [Arabidopsis thaliana] (TAIR:AT1G08465.1); similar to YABBY-like transcription factor PROLONGATA [Antirrhinum majus] (GB:AAS10178.1); contains InterPro domain YABBY protein; (InterPro:IPR006780); contains InterPro domain High mobility group box; (InterPro:IPR009071)\\
## Solyc12g009650 & NA & NA\\
## Solyc12g014100 & AT5G54080 & homogentisate 1,2-dioxygenase\\
## Solyc12g040860 & NA & NA\\
## \addlinespace
## Solyc12g057080 & AT1G22360 & UDP-glucoronosyl/UDP-glucosyl transferase family protein; similar to UDP-glucoronosyl/UDP-glucosyl transferase family protein [Arabidopsis thaliana] (TAIR:AT1G22340.1); similar to transcription factor/ transferase, transferring glycosyl groups [Arabidopsis thaliana] (TAIR:AT1G22380.1); similar to UGT85A1 (UDP-glucosyl transferase 85A1), UDP-glycosyltransferase/ transferase, transferring glycosyl groups / transferase, transferring hexosyl groups [Arabidopsis thaliana] (TAIR:AT1G22400.1); similar to glycosyltransferase NTGT5b [Nicotiana tabacum] (GB:BAD93690.1); similar to glycosyltransferase NTGT5a [Nicotiana tabacum] (GB:BAD93689.1); contains InterPro domain UDP-glucuronosyl/UDP-glucosyltransferase; (InterPro:IPR002213)\\
## Solyc12g088820 & AT5G09890 & kinase; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT4G14350.3); similar to protein kinase [Raphanus sativus] (GB:BAC76894.1); similar to Serine/threonine protein kinase [Medicago truncatula] (GB:ABE88922.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase, C-terminal; (InterPro:IPR000961); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719)\\
## Solyc12g094640 & AT1G42970 & Encodes chloroplast localized glyceraldehyde-3-phosphate dehydrogenase.\\
## Solyc12g098410 & NA & NA\\
## Solyc12g098600 & NA & NA\\
## Solyc12g099780 & NA & NA\\
## \bottomrule
## \end{tabular}Cluster 28
clusterVis(28)## Using gene as id variables
clusterVis_PCA(28)
clusterVis_line(28)## Using gene, curated as id variables
#clusterGO(28)
y <- genesInClust(28, data.val2, annotation) ## [1] 89kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc01g006330 & AT1G51110 & plastid-lipid associated protein PAP / fibrillin family protein; similar to plastid-lipid associated protein PAP / fibrillin family protein [Arabidopsis thaliana] (TAIR:AT3G26070.1); similar to PAP fibrillin [Medicago truncatula] (GB:ABE81557.1); contains InterPro domain PAP fibrillin; (InterPro:IPR006843)\\
## Solyc01g007880 & NA & NA\\
## Solyc01g008070 & AT5G47860 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G43540.1); similar to H0502B11.12 [Oryza sativa (indica cultivar-group)] (GB:CAH66532.1); contains InterPro domain Protein of unknown function DUF1350; (InterPro:IPR010765)\\
## Solyc01g009430 & AT2G27830 & similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G22760.1); similar to hypothetical protein [Catharanthus roseus] (GB:CAC09928.1)\\
## Solyc01g010770 & AT5G62740 & band 7 family protein; similar to band 7 family protein [Arabidopsis thaliana] (TAIR:AT1G69840.6); similar to hypersensitive-induced reaction protein [Capsicum annuum] (GB:AAS98165.1); contains InterPro domain Band 7 protein; (InterPro:IPR001107)\\
## \addlinespace
## Solyc01g057640 & NA & NA\\
## Solyc01g091040 & AT3G60720 & receptor-like protein kinase-related; similar to 33 kDa secretory protein-related [Arabidopsis thaliana] (TAIR:AT2G01660.1); similar to Os04g0537800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053427.1); similar to receptor-like protein kinase-like [Oryza sativa (japonica cultivar-group)] (GB:BAD25786.1); contains InterPro domain Protein of unknown function DUF26; (InterPro:IPR002902)\\
## Solyc01g091550 & NA & NA\\
## Solyc01g103600 & NA & NA\\
## Solyc01g104860 & AT4G25980 & cationic peroxidase, putative; Identical to Peroxidase 43 precursor (EC 1.11.1.7) (Atperox P43) (PER43) [Arabidopsis Thaliana] (GB:Q9SZH2); similar to peroxidase, putative [Arabidopsis thaliana] (TAIR:AT1G77100.1); similar to Peroxidase 43 precursor (Atperox P43) (GB:Q9SZH2); contains InterPro domain Haem peroxidase; (InterPro:IPR010255); contains InterPro domain Haem peroxidase, plant/fungal/bacterial; (InterPro:IPR002016); contains InterPro domain Plant peroxidase; (InterPro:IPR000823)\\
## \addlinespace
## Solyc01g105360 & AT1G22360 & UDP-glucoronosyl/UDP-glucosyl transferase family protein; similar to UDP-glucoronosyl/UDP-glucosyl transferase family protein [Arabidopsis thaliana] (TAIR:AT1G22340.1); similar to transcription factor/ transferase, transferring glycosyl groups [Arabidopsis thaliana] (TAIR:AT1G22380.1); similar to UGT85A1 (UDP-glucosyl transferase 85A1), UDP-glycosyltransferase/ transferase, transferring glycosyl groups / transferase, transferring hexosyl groups [Arabidopsis thaliana] (TAIR:AT1G22400.1); similar to glycosyltransferase NTGT5b [Nicotiana tabacum] (GB:BAD93690.1); similar to glycosyltransferase NTGT5a [Nicotiana tabacum] (GB:BAD93689.1); contains InterPro domain UDP-glucuronosyl/UDP-glucosyltransferase; (InterPro:IPR002213)\\
## Solyc01g107020 & NA & NA\\
## Solyc01g107640 & AT2G15290 & Encodes a protein located in the chloroplast inner envelope. The study of mutant defective in the gene product suggests that the protein is involved in the translocation of protein across the envelope membrane into the chloroplast stroma.\\
## Solyc01g111280 & NA & NA\\
## Solyc02g021700 & AT5G44450 & similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAK09232.1); contains InterPro domain SAM (and some other nucleotide) binding motif; (InterPro:IPR000051); contains InterPro domain Generic methyltransferase; (InterPro:IPR001601); contains InterPro domain Protein of unknown function DUF858, methyltransferase-like; (InterPro:IPR008576)\\
## \addlinespace
## Solyc02g062400 & NA & NA\\
## Solyc02g062610 & AT4G36530 & hydrolase, alpha/beta fold family protein; similar to hydrolase, alpha/beta fold family protein [Arabidopsis thaliana] (TAIR:AT5G19850.1); similar to hydrolase, alpha/beta fold family [Synechococcus sp. JA-3-3Ab] (GB:YP_473970.1); similar to Os02g0705100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047865.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073); contains InterPro domain Epoxide hydrolase; (InterPro:IPR000639); contains InterPro domain Alpha/beta hydrolase; (InterPro:IPR003089)\\
## Solyc02g069020 & NA & NA\\
## Solyc02g070220 & AT1G30660 & toprim domain-containing protein; similar to toprim domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G30680.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD46002.1); contains InterPro domain Toprim, primase; (InterPro:IPR006647); contains InterPro domain TOPRIM; (InterPro:IPR006171); contains InterPro domain Toprim subdomain; (InterPro:IPR006154)\\
## Solyc02g076750 & NA & NA\\
## \addlinespace
## Solyc02g083660 & NA & NA\\
## Solyc02g086970 & AT1G23800 & Encodes a mitochondrial aldehyde dehydrogenase; nuclear gene for mitochondrial product.\\
## Solyc02g087210 & AT3G28210 & Encodes a putative zinc finger protein (PMZ).\\
## Solyc02g089350 & NA & NA\\
## Solyc02g090360 & AT5G66920 & SKS17 (SKU5 Similar 17); copper ion binding / oxidoreductase; similar to SKS15 (SKU5 Similar 15), copper ion binding [Arabidopsis thaliana] (TAIR:AT4G37160.1); similar to SKS4 (SKU5 Similar 4), copper ion binding / oxidoreductase [Arabidopsis thaliana] (TAIR:AT4G22010.1); similar to SKS16 (SKU5 Similar 16), copper ion binding / pectinesterase [Arabidopsis thaliana] (TAIR:AT2G23630.1); similar to PS60 [Nicotiana tabacum] (GB:CAA65634.1); similar to Multicopper oxidase, type 1 [Medicago truncatula] (GB:ABE89109.1); similar to Os07g0119400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058771.1); contains InterPro domain Cupredoxin; (InterPro:IPR008972); contains InterPro domain Multicopper oxidase, type 3; (InterPro:IPR011707); contains InterPro domain Multicopper oxidase, type 2; (InterPro:IPR011706); contains InterPro domain Multicopper oxidase, type 1; (InterPro:IPR001117)\\
## \addlinespace
## Solyc02g092200 & NA & NA\\
## Solyc02g093140 & NA & NA\\
## Solyc03g005130 & NA & NA\\
## Solyc03g034300 & NA & NA\\
## Solyc03g062740 & NA & NA\\
## \addlinespace
## Solyc03g071690 & AT3G10520 & class 2 non-symbiotic hemoglobin\\
## Solyc03g113420 & AT5G62680 & proton-dependent oligopeptide transport (POT) family protein; similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT1G18880.1); similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT3G47960.1); similar to nitrate transporter NRT1-1 [Glycine max] (GB:BAB19756.1); similar to nitrate transporter NRT1-5 [Glycine max] (GB:BAB19760.1); similar to nitrate transporter NRT1-2 [Glycine max] (GB:BAB19757.1); contains InterPro domain TGF-beta receptor, type I/II extracellular region; (InterPro:IPR000109)\\
## Solyc04g009130 & NA & NA\\
## Solyc04g014650 & NA & NA\\
## Solyc04g016230 & NA & NA\\
## \addlinespace
## Solyc04g049580 & AT4G13400 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G63290.1); similar to hypothetical protein MXAN_7307 [Myxococcus xanthus DK 1622] (GB:YP_635420.1); similar to Os05g0556000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056277.1); contains domain no description (G3D.3.50.60.10); contains domain Clavaminate synthase-like (SSF51197)\\
## Solyc04g050440 & AT1G64780 & encodes an ammonium transporter gene\\
## Solyc04g080800 & AT1G45110 & tetrapyrrole methylase family protein; similar to Os10g0414500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064595.1); similar to hypothetical protein F9002 [Zea mays] (GB:AAV64189.1); contains InterPro domain Protein of unknown function UPF0011; (InterPro:IPR008189); contains InterPro domain Uroporphyrin-III C/tetrapyrrole (Corrin/Porphyrin) methyltransferase; (InterPro:IPR000878)\\
## Solyc04g082510 & AT1G20650 & protein kinase; similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT1G76370.1); similar to putative serine/threonine protein kinase [Oryza sativa (japonica cultivar-group)] (GB:AAT58829.1); similar to Os01g0936100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045326.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc05g009310 & NA & NA\\
## \addlinespace
## Solyc05g009790 & AT1G13260 & Encodes an AP2/B3 domain transcription factor which is upregulated in response to low temperature. It contains a B3 DNA binding domain. It has circadian regulation and may function as a negative growth regulator.\\
## Solyc05g042010 & NA & NA\\
## Solyc05g053530 & AT3G24220 & A member of gene NCED-related gene family, encodes 9-cis-epoxycarotenoid dioxygenase, a key enzyme in the biosynthesis of abscisic acid. The expression of this gene declines during the first 12h of imbibition.\\
## Solyc05g053790 & AT3G23820 & UDP-D-glucuronate 4-epimerase\\
## Solyc05g055820 & AT1G79790 & haloacid dehalogenase-like hydrolase family protein; similar to HAD-superfamily hydrolase, subfamily IA, variant 3, putative [Oryza sativa (japonica cultivar-group)] (GB:AAX96430.1); contains InterPro domain HAD-superfamily hydrolase subfamily IA, variant 3; (InterPro:IPR006402); contains InterPro domain Haloacid dehalogenase-like hydrolase; (InterPro:IPR005834)\\
## \addlinespace
## Solyc06g048540 & AT3G10670 & Plastidic SufC-like ATP-binding cassette/ATPase essential for Arabidopsis embryogenesis. Involved in the biogenesis and/or repair of oxidatively damaged Fe–S clusters. Expressed in embryos and meristems.\\
## Solyc06g050500 & NA & NA\\
## Solyc06g051620 & AT2G40116 & phosphoinositide-specific phospholipase C family protein; similar to phosphoinositide-specific phospholipase C family protein [Arabidopsis thaliana] (TAIR:AT5G58700.1); similar to phosphoinositide-specific phospholipase C family protein [Arabidopsis thaliana] (TAIR:AT5G58690.1); similar to ATPLC2 (PHOSPHOLIPASE C 2), phospholipase C [Arabidopsis thaliana] (TAIR:AT3G08510.2); similar to phosphoinositide-specific phospholipase C [Nicotiana rustica] (GB:CAA65127.1); similar to phosphoinositide-specific phospholipase C P12 (GB:AAB03257.1); similar to 1-phosphatidylinositol-4,5-bisphosphate phosphodiesterase [Nicotiana rustica] (GB:CAA72681.1); contains InterPro domain Phosphatidylinositol-specific phospholipase C, X region; (InterPro:IPR000909); contains InterPro domain Phosphatidylinositol-specific phospholipase C, Y domain; (InterPro:IPR001711); contains InterPro domain C2; (InterPro:IPR000008); contains InterPro domain Phosphoinositide-specific phospholipase C (PLC); (InterPro:IPR001192); contains InterPro domain C2 calcium/lipid-binding region, CaLB; (InterPro:IPR008973)\\
## Solyc06g068430 & NA & NA\\
## Solyc06g073130 & NA & NA\\
## \addlinespace
## Solyc06g074030 & AT3G44260 & CCR4-NOT transcription complex protein, putative; similar to CCR4-NOT transcription complex protein, putative [Arabidopsis thaliana] (TAIR:AT5G22250.1); similar to CCR4 associated factor 1-related protein [Capsicum annuum] (GB:ABG66307.1); contains InterPro domain Ribonuclease CAF1; (InterPro:IPR006941); contains InterPro domain Polynucleotidyl transferase, Ribonuclease H fold; (InterPro:IPR012337)\\
## Solyc07g006140 & AT3G14690 & putative cytochrome P450\\
## Solyc07g007840 & NA & NA\\
## Solyc07g019520 & NA & NA\\
## Solyc07g062150 & AT1G78590 & Encodes a NADH kinase which can synthesize NADPH from NADH; also utilizes NAD+ as substrate although NADH is the preferred substrate.\\
## \addlinespace
## Solyc07g063490 & AT1G54890 & late embryogenesis abundant protein-related / LEA protein-related; similar to late embryogenesis abundant protein-related / LEA protein-related [Arabidopsis thaliana] (TAIR:AT5G54370.1); similar to Curculin-like (mannose-binding) lectin; Root cap [Medicago truncatula] (GB:ABE80074.1); contains InterPro domain Root cap; (InterPro:IPR009646)\\
## Solyc07g064160 & AT5G54770 & Thiamine biosynthetic gene, has dual function in thiamine biosynthesis and mitochondrial DNA damage tolerance.\\
## Solyc07g066190 & NA & NA\\
## Solyc08g005610 & AT4G19230 & Encodes a protein with ABA 8'-hydroxylase activity, involved in ABA catabolism. Member of the CYP707A gene family. CYP707A1 appears to play an important role in determining the ABA levels in dry seeds. Gene involved in postgermination growth. Overexpression of CYP707A1 leads to a decrease in ABA levels and a reduction in after-ripening period to break dormancy.\\
## Solyc08g014080 & NA & NA\\
## \addlinespace
## Solyc08g065950 & NA & NA\\
## Solyc08g067570 & NA & NA\\
## Solyc08g075870 & AT4G19120 & ERD3 (EARLY-RESPONSIVE TO DEHYDRATION 3); similar to dehydration-responsive protein, putative [Arabidopsis thaliana] (TAIR:AT1G31850.2); similar to dehydration-responsive protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD67956.1); similar to Os06g0103900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056546.1); contains InterPro domain Protein of unknown function DUF248, methyltransferase putative; (InterPro:IPR004159)\\
## Solyc08g080380 & NA & NA\\
## Solyc08g081040 & NA & NA\\
## \addlinespace
## Solyc08g081840 & AT3G61600 & POZ/BTB containing-protein AtPOB1\\
## Solyc09g005000 & NA & NA\\
## Solyc09g008550 & NA & NA\\
## Solyc09g009880 & NA & NA\\
## Solyc09g014230 & AT3G54140 & proton-dependent oligopeptide transport (POT) family protein; similar to ATPTR2-B (NITRATE TRANSPORTER 1), transporter [Arabidopsis thaliana] (TAIR:AT2G02040.1); similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT1G62200.1); similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT5G01180.1); similar to LeOPT1 [Lycopersicon esculentum] (GB:AAD01600.1); similar to putative peptide transport protein [Oryza sativa (japonica cultivar-group)] (GB:BAD31819.1); similar to peptide transporter [Hordeum vulgare] (GB:AAC32034.1); contains InterPro domain TGF-beta receptor, type I/II extracellular region; (InterPro:IPR000109)\\
## \addlinespace
## Solyc09g059460 & NA & NA\\
## Solyc09g098200 & AT1G05820 & protease-associated (PA) domain-containing protein; similar to protease-associated (PA) domain-containing protein [Arabidopsis thaliana] (TAIR:AT2G43070.1); similar to hypothetical protein [Trifolium pratense] (GB:BAE71293.1); contains InterPro domain Protease-associated PA; (InterPro:IPR003137); contains InterPro domain Peptidase A22, presenilin signal peptide; (InterPro:IPR006639); contains InterPro domain Peptidase A22B, minor histocompatibility antigen H13; (InterPro:IPR007369)\\
## Solyc10g006650 & AT5G54500 & Encodes a flavin mononucleotide-binding flavodoxin-like quinone reductase that is a primary auxin-response gene.\\
## Solyc10g008830 & AT5G45960 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT1G06990.1); similar to putative family II extracellular lipase 3 (EXL3) [Oryza sativa (japonica cultivar-group)] (GB:BAD07804.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc10g047370 & AT5G09450 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G02820.1); similar to Os04g0450200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052937.1); similar to H0107B07.5 [Oryza sativa (indica cultivar-group)] (GB:CAH66166.1); similar to OSJNBa0086B14.3 [Oryza sativa (japonica cultivar-group)] (GB:CAD40831.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc10g051380 & NA & NA\\
## Solyc10g085440 & NA & NA\\
## Solyc11g010850 & AT4G15560 & Encodes a protein with 1-deoxyxylulose 5-phosphate synthase activity involved in the MEP pathway. It is essential for chloroplast development in Arabidopsis\\
## Solyc11g012240 & NA & NA\\
## Solyc11g044800 & AT2G13840 & PHP domain-containing protein; similar to Os03g0192000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049236.1); similar to putative PHP domain N-terminal re (GB:BAD15560.1); contains InterPro domain Ankyrin; (InterPro:IPR002110); contains InterPro domain PHP, C-terminal; (InterPro:IPR004013); contains InterPro domain Phosphoesterase PHP, N-terminal; (InterPro:IPR003141)\\
## \addlinespace
## Solyc11g045520 & AT3G12900 & oxidoreductase, 2OG-Fe(II) oxygenase family protein; similar to oxidoreductase, 2OG-Fe(II) oxygenase family protein [Arabidopsis thaliana] (TAIR:AT1G55290.1); similar to 2-oxoglutarate-dependent dioxygenase [Solanum lycopersicum] (GB:BAD98961.1); contains InterPro domain 2OG-Fe(II) oxygenase; (InterPro:IPR005123)\\
## Solyc11g064870 & AT5G19390 & pleckstrin homology (PH) domain-containing protein / RhoGAP domain-containing protein; similar to pleckstrin homology (PH) domain-containing protein / RhoGAP domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G12150.1); similar to pleckstrin homology (PH) domain-containing protein-related / RhoGAP domain-containing protein [Arabidopsis thaliana] (TAIR:AT4G24580.1); similar to pleckstrin homology (PH) domain-containing protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD73663.1); similar to pleckstrin homology (PH) domain-containing protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD30338.1); similar to pleckstriny domain-containing protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF96033.1); contains InterPro domain Pleckstrin-like; (InterPro:IPR001849); contains InterPro domain Pleckstrin homology-type; (InterPro:IPR011993); contains InterPro domain Rho GTPase activation protein; (InterPro:IPR008936); contains InterPro domain RhoGAP; (InterPro:IPR000198)\\
## Solyc11g065250 & NA & NA\\
## Solyc12g010960 & AT5G16990 & NADP-dependent oxidoreductase, putative; Identical to Probable NADP-dependent oxidoreductase P2 (EC 1.3.1.74) (P2) [Arabidopsis Thaliana] (GB:Q39173;GB:Q9LFK3); similar to NADP-dependent oxidoreductase, putative [Arabidopsis thaliana] (TAIR:AT5G17000.1); similar to AT-AER (ALKENAL REDUCTASE), 2-alkenal reductase [Arabidopsis thaliana] (TAIR:AT5G16970.1); similar to allyl alcohol dehydrogenase [Nicotiana tabacum] (GB:BAA89423.1); contains InterPro domain GroES-like; (InterPro:IPR011032); contains InterPro domain Alcohol dehydrogenase superfamily, zinc-containing; (InterPro:IPR002085); contains InterPro domain Alcohol dehydrogenase, zinc-binding; (InterPro:IPR013149)\\
## Solyc12g011130 & AT4G17170 & member of RAB gene family\\
## \addlinespace
## Solyc12g017530 & NA & NA\\
## Solyc12g042250 & AT2G02040 & Encodes a peptide transport gene that mediates the transport of di- and tripeptides.\\
## Solyc12g096850 & AT1G09380 & integral membrane family protein / nodulin MtN21-related; similar to nodulin MtN21 family protein [Arabidopsis thaliana] (TAIR:AT5G07050.1); similar to nodulin-like protein [Gossypium hirsutum] (GB:AAO60108.1); contains InterPro domain Protein of unknown function DUF6, transmembrane; (InterPro:IPR000620)\\
## Solyc12g098390 & NA & NA\\
## \bottomrule
## \end{tabular}##Cluster 29
clusterVis(29)## Using gene as id variables
clusterVis_PCA(29)
clusterVis_line(29)## Using gene, curated as id variables
#clusterGO(29)
y <- genesInClust(29, data.val2, annotation) ## [1] 96kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g187050 & AT4G30920 & cytosol aminopeptidase family protein; Identical to Leucine aminopeptidase 3, chloroplast precursor (EC 3.4.11.1) (LAP 3) (Leucyl aminopeptidase 3) (Proline aminopeptidase 3) (EC 3.4.11.5) (Prolyl aminopeptidase 3) [Arabidopsis Thaliana] (GB:Q944P7;GB:O65557); similar to cytosol aminopeptidase [Arabidopsis thaliana] (TAIR:AT2G24200.1); similar to cytosol aminopeptidase family protein [Arabidopsis thaliana] (TAIR:AT4G30910.1); similar to Leucine aminopeptidase 2, chloroplast precursor (LAP 2) (Leucyl aminopeptidase 2) (Proline aminopeptidase 2) (Prolyl aminopeptidase 2) (GB:Q42876); similar to neutral leucine aminopeptidase preprotein; preLAP-N; metallo-exopeptidase; leucyl aminopeptidase; LAP [Lycopersicon esculentum] (GB:AAO15916.1); similar to Cytosol aminopeptidase family, catalytic domain, putative [Medicago truncatula] (GB:ABE88725.1); contains InterPro domain Peptidase M17, leucyl aminopeptidase, N-terminal; (InterPro:IPR008283); contains InterPro domain Peptidase M17, leucyl aminopeptidase, C-terminal; (InterPro:IPR000819)\\
## Solyc01g007690 & NA & NA\\
## Solyc01g007700 & NA & NA\\
## Solyc01g007710 & NA & NA\\
## Solyc01g008480 & NA & NA\\
## \addlinespace
## Solyc01g009730 & NA & NA\\
## Solyc01g014120 & NA & NA\\
## Solyc01g017050 & NA & NA\\
## Solyc01g017480 & ATCG01130 & Identical to Putative membrane protein ycf1 (ycf1-B) [Arabidopsis Thaliana] (GB:P56785); similar to hypothetical chloroplast RF1 [Gossypium hirsutum] (GB:YP_538982.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41305.1); similar to hypothetical chloroplast RF1 [Eucalyptus globulus subsp. globulus] (GB:YP_636357.1); contains InterPro domain Ycf1; (InterPro:IPR008896)\\
## Solyc01g017490 & NA & NA\\
## \addlinespace
## Solyc01g080500 & NA & NA\\
## Solyc01g087250 & AT3G63520 & Encodes a protein with 9-<i>cis</i>-epoxycarotenoid dioxygenase activity. The enzyme was shown to act on a variety of carotenoid including β-carotene, lutein, zeaxanthin, and all-<i>trans</i>-violaxanthin. When those compounds are used as substrates, the major reaction product detected is a C14 dialdehyde: 4,9-dimethyldodeca-2,4,6,8,10-pentaene-1,12-dial. The enzyme did not cleave as efficiently carotenoids containing 9-<i>cis</i>-double or allenic bonds.\\
## Solyc01g088810 & NA & NA\\
## Solyc01g091170 & AT4G08900 & arginase; Identical to Arginase (EC 3.5.3.1) [Arabidopsis Thaliana] (GB:P46637); similar to arginase, putative [Arabidopsis thaliana] (TAIR:AT4G08870.1); similar to ar (GB:AAK15006.1); contains InterPro domain Arginase/agmatinase/formiminoglutamase; (InterPro:IPR006035)\\
## Solyc01g104760 & NA & NA\\
## \addlinespace
## Solyc01g107990 & AT1G49740 & phospholipase C; similar to phospholipase C [Arabidopsis thaliana] (TAIR:AT3G19310.1); similar to Os04g0430200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052817.1); similar to B0222C05.4 [Oryza sativa (indica cultivar-group)] (GB:CAH66396.1); contains InterPro domain Phosphatidylinositol-specific phospholipase C, X region; (InterPro:IPR000909)\\
## Solyc01g108400 & AT3G50530 & CDPK-related kinase\\
## Solyc02g043950 & NA & NA\\
## Solyc02g078400 & AT4G04955 & Encodes an allantoinase which is involved in allantoin degradation and assimilation. Gene expression was induced when allantoin was added to the medium. The insertion mutant, ataln m2-1, did not grow well on the MS medium where allantoin, instead of ammonium nitrate, was supplied.\\
## Solyc02g079030 & AT4G21540 & Encodes a putative sphingosine kinase (SphK) containing the five conserved domains (C1-C5) previously identified in SphKs.\\
## \addlinespace
## Solyc02g085710 & NA & NA\\
## Solyc02g089020 & NA & NA\\
## Solyc02g089120 & AT5G60920 & Encodes a glycosylphosphatidylinositol-anchored protein localized primarily in the plasma membrane of the longitudinal sides of root cells. Necessary for oriented cell expansion in Arabidopsis. Cob mutants have abnormal roots that expand radially rather than longitudinally under certain growth conditions.\\
## Solyc03g005260 & AT3G22890 & encodes ATP sulfurylase, the first enzyme in the sulfate assimilation pathway of Arabidopsis.\\
## Solyc03g007410 & NA & NA\\
## \addlinespace
## Solyc03g063480 & NA & NA\\
## Solyc03g064040 & NA & NA\\
## Solyc03g083030 & AT5G24310 & ABIL3 (ABL INTERACTOR-LIKE PROTEIN 3); Identical to Protein ABIL3 (Abl interactor-like protein 3) (AtABIL3) (ABIL3) [Arabidopsis Thaliana] (GB:Q6NMC6;GB:Q3YIV3;GB:Q3YIV4;GB:Q9FNF1); similar to ABIL2 (ABL INTERACTOR-LIKE PROTEIN 2) [Arabidopsis thaliana] (TAIR:AT3G49290.2); similar to Probable protein ABIL3 (Abl interactor-like protein 3) (GB:Q5NB83); similar to Os01g0236400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042529.1); similar to Os01g0551800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043308.1)\\
## Solyc03g083100 & NA & NA\\
## Solyc03g098790 & NA & NA\\
## \addlinespace
## Solyc03g115560 & AT5G07800 & flavin-containing monooxygenase family protein / FMO family protein; similar to flavin-containing monooxygenase family protein / FMO family protein [Arabidopsis thaliana] (TAIR:AT5G61290.1); similar to putative flavin-containing monooxygenase FMO-1 [Oryza sativa (japonica cultivar-group)] (GB:BAD89476.1); similar to Os07g0112100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058742.1); contains InterPro domain NAD-binding site; (InterPro:IPR000205); contains InterPro domain Pyridine nucleotide-disulphide oxidoreductase, class I; (InterPro:IPR001100); contains InterPro domain Adrenodoxin reductase; (InterPro:IPR000759); contains InterPro domain Flavin-containing monooxygenase FMO; (InterPro:IPR000960); contains InterPro domain FAD-dependent pyridine nucleotide-disulphide oxidoreductase; (InterPro:IPR013027)\\
## Solyc03g117830 & NA & NA\\
## Solyc03g119760 & AT1G73950 & zinc finger (C3HC4-type RING finger) family protein; similar to membrane protein, putative [Arabidopsis thaliana] (TAIR:AT1G68820.1); similar to zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] (TAIR:AT1G18470.1); similar to hypothetical protein [Trifolium pratense] (GB:BAE71207.1); similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE90658.1); similar to Putative finger family protein [Brassica oleracea] (GB:AAW81737.1); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc03g121100 & NA & NA\\
## Solyc04g007510 & AT2G01130 & ATP binding / helicase/ nucleic acid binding; similar to ATP binding / helicase/ nucleic acid binding [Arabidopsis thaliana] (TAIR:AT5G04895.1); similar to helicase domain-containing protein [Arabidopsis thaliana] (TAIR:AT2G35920.1); similar to helicase domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G48650.1); similar to putative helicase [Oryza sativa] (GB:AAL58955.1); similar to putative DEAD/H box polypeptide 36 protein [Oryza sativa (japonica cultivar-group)] (GB:BAD52491.1); similar to Helicase associated domain family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF98878.1); contains InterPro domain Helicase-associated region; (InterPro:IPR007502); contains InterPro domain DEAD/DEAH box helicase; (InterPro:IPR001410); contains InterPro domain Protein of unknown function DUF1605; (InterPro:IPR011709); contains InterPro domain DEAD/DEAH box helicase, N-terminal; (InterPro:IPR011545); contains InterPro domain Helicase, C-terminal; (InterPro:IPR001650); contains InterPro domain Double-stranded RNA binding; (InterPro:IPR001159)\\
## \addlinespace
## Solyc04g014640 & NA & NA\\
## Solyc04g048900 & AT1G08450 & Encodes calreticulin CRT3.\\
## Solyc04g076570 & AT4G24460 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G19380.1); similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE77682.1); similar to Os12g0511300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066868.1)\\
## Solyc04g076950 & AT1G58340 & ZF14 mRNA, complete cds\\
## Solyc05g005050 & NA & NA\\
## \addlinespace
## Solyc05g018790 & NA & NA\\
## Solyc05g026570 & NA & NA\\
## Solyc06g043020 & NA & NA\\
## Solyc06g050890 & NA & NA\\
## Solyc06g054440 & AT4G15475 & F-box family protein (FBL4); similar to EBF2 (EIN3-BINDING F BOX PROTEIN 2) [Arabidopsis thaliana] (TAIR:AT5G25350.1); similar to Leucine Rich Repeat family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95013.1); contains InterPro domain Leucine-rich repeat, cysteine-containing subtype; (InterPro:IPR006553); contains InterPro domain Cyclin-like F-box; (InterPro:IPR001810); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, cysteine-containing; (InterPro:IPR007089)\\
## \addlinespace
## Solyc06g060110 & AT1G77380 & Amino acid permease which transports basic amino acids.\\
## Solyc06g066680 & AT1G79900 & encodes a mitochondrial ornithine transporter that exports ornithine from the mitochondria to the cytosol\\
## Solyc06g068960 & AT1G18210 & calcium-binding protein, putative; similar to calcium-binding protein, putative [Arabidopsis thaliana] (TAIR:AT1G73630.1); similar to Calcium-binding EF-hand [Medicago truncatula] (GB:ABE81417.1); contains InterPro domain EF-Hand type; (InterPro:IPR011992); contains InterPro domain Calcium-binding EF-hand; (InterPro:IPR002048)\\
## Solyc06g069300 & NA & NA\\
## Solyc06g069370 & NA & NA\\
## \addlinespace
## Solyc06g071550 & AT5G17990 & Encodes the tryptophan biosynthetic enzyme phosphoribosylanthranilate transferase (PAT1, called trpD in bacteria). Converts anthranilate and phosphoribosylpyrophosphate into phosphoribosylanthranilate and inorganic pyrophosphate.\\
## Solyc06g075150 & AT4G30080 & Involved in root cap cell differentiation. Gene expression is regulated by mir160.Located in the nucleus.\\
## Solyc06g083900 & AT1G06180 & member of MYB3R- and R2R3- type MYB- encoding genes\\
## Solyc07g009360 & NA & NA\\
## Solyc07g021190 & ATCG00490 & large subunit of RUBISCO.\\
## \addlinespace
## Solyc07g052970 & NA & NA\\
## Solyc07g055210 & AT2G30970 & ASPARTATE AMINOTRANSFERASE 1\\
## Solyc07g055930 & AT3G58790 & Encodes a protein with putative galacturonosyltransferase activity.\\
## Solyc07g061740 & NA & NA\\
## Solyc07g065320 & AT3G13080 & encodes an ATP-dependent MRP-like ABC transporter able to transport glutathione-conjugates as well as chlorophyll catabolites. The expression of this gene is upregulated by herbicide safeners such as benoxacor and fenclorim.\\
## \addlinespace
## Solyc08g007130 & AT4G17090 & Encodes a beta-amylase targeted to the chloroplast. Transgenic BMY8 RNAi lines fail to accumulate maltose during cold shock suggesting that maltose accumulation coincides with BMY8 expression. Apart from maltose, the sugar content of the RNAi lines were similar to wildtype (glucose and sucrose unaffected).\\
## Solyc08g013690 & NA & NA\\
## Solyc08g041820 & AT5G25220 & A member of class II knotted1-like homeobox gene family (together with KNAT4 and KNAT5). Expressed in: hypocotyl-root boundary, anther-filament junction in flowers, ovule-funiculus and peduncle-silique boundaries, petioles and root. Light-regulated expression with differential response to red/far-red light. KNAT3 promoter activity showed cell-type specific pattern along longitudinal root axis, restricted mainly to the differentiation zone of the root, namely in the cortex and pericycle. Not detected in lateral root primordia\\
## Solyc08g044230 & NA & NA\\
## Solyc08g065370 & ATCG00270 & PSII D2 protein\\
## \addlinespace
## Solyc08g076150 & AT1G31920 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G66520.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABD32557.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc08g080130 & AT2G42010 & phospholipase D (PLDbeta)\\
## Solyc08g083400 & NA & NA\\
## Solyc09g007380 & AT5G02970 & hydrolase, alpha/beta fold family protein; similar to hydrolase [Arabidopsis thaliana] (TAIR:AT3G09690.2); similar to Alpha/beta hydrolase fold [Medicago truncatula] (GB:ABE78305.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073)\\
## Solyc09g011150 & NA & NA\\
## \addlinespace
## Solyc09g050100 & NA & NA\\
## Solyc09g050110 & NA & NA\\
## Solyc09g050120 & NA & NA\\
## Solyc09g064170 & NA & NA\\
## Solyc09g083440 & NA & NA\\
## \addlinespace
## Solyc09g084490 & NA & NA\\
## Solyc10g079350 & NA & NA\\
## Solyc10g083210 & NA & NA\\
## Solyc11g008320 & AT3G10390 & Encodes a plant homolog of a SWIRM domain containing protein found in histone deacetylase complexes in mammals. Lesions in FLD result in hyperacetylation of histones in FLC chromatin, up-regulation of FLC expression and extremely delayed flowering. FLD plays a key role in regulating the reproductive competence of the shoot and results in different developmental phase transitions in Arabidopsis.\\
## Solyc11g017310 & NA & NA\\
## \addlinespace
## Solyc11g021150 & NA & NA\\
## Solyc11g021160 & NA & NA\\
## Solyc11g021170 & NA & NA\\
## Solyc11g031970 & NA & NA\\
## Solyc11g039860 & NA & NA\\
## \addlinespace
## Solyc11g044610 & NA & NA\\
## Solyc11g044630 & NA & NA\\
## Solyc11g044660 & NA & NA\\
## Solyc11g045430 & NA & NA\\
## Solyc11g063520 & NA & NA\\
## \addlinespace
## Solyc11g066730 & AT3G44820 & phototropic-responsive NPH3 family protein; similar to phototropic-responsive NPH3 family protein [Arabidopsis thaliana] (TAIR:AT1G30440.1); similar to putative non-phototropic hypocotyl 3-like protein [Ipomoea trifida] (GB:AAS79592.1); contains InterPro domain NPH3; (InterPro:IPR004249); contains InterPro domain BTB; (InterPro:IPR000210)\\
## Solyc11g069210 & NA & NA\\
## Solyc12g032990 & NA & NA\\
## Solyc12g038080 & ATCG00280 & chloroplast gene encoding a CP43 subunit of the photosystem II reaction center. promoter contains a blue-light responsive element.\\
## Solyc12g044980 & NA & NA\\
## Solyc12g095750 & AT1G20925 & auxin efflux carrier family protein; similar to auxin efflux carrier family protein [Arabidopsis thaliana] (TAIR:AT1G76520.2); similar to Auxin Efflux Carrier [Medicago truncatula] (GB:ABE88820.1); contains InterPro domain Auxin Efflux Carrier; (InterPro:IPR004776)\\
## \bottomrule
## \end{tabular}Cluster 30
clusterVis(30)## Using gene as id variables
clusterVis_PCA(30)
clusterVis_line(30)## Using gene, curated as id variables
#clusterGO(30)
y <- genesInClust(30, data.val2, annotation) ## [1] 437kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g006470 & NA & NA\\
## Solyc00g006670 & NA & NA\\
## Solyc00g006680 & NA & NA\\
## Solyc00g006690 & NA & NA\\
## Solyc00g008570 & NA & NA\\
## \addlinespace
## Solyc00g008580 & NA & NA\\
## Solyc00g009760 & NA & NA\\
## Solyc00g010530 & NA & NA\\
## Solyc00g011150 & NA & NA\\
## Solyc00g011160 & NA & NA\\
## \addlinespace
## Solyc00g011170 & NA & NA\\
## Solyc00g012430 & NA & NA\\
## Solyc00g012440 & NA & NA\\
## Solyc00g013160 & NA & NA\\
## Solyc00g018970 & NA & NA\\
## \addlinespace
## Solyc00g019970 & NA & NA\\
## Solyc00g019990 & NA & NA\\
## Solyc00g021650 & NA & NA\\
## Solyc00g056680 & AT4G16820 & lipase class 3 family protein; similar to DAD1 (DEFECTIVE ANTHER DEHISCENCE 1), triacylglycerol lipase [Arabidopsis thaliana] (TAIR:AT2G44810.1); similar to lipase-like protein [Oryza sativa] (GB:CAC39051.1); similar to Os02g0653900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047607.1); contains InterPro domain Lipase, class 3; (InterPro:IPR002921)\\
## Solyc00g068970 & NA & NA\\
## \addlinespace
## Solyc00g094520 & NA & NA\\
## Solyc00g102000 & NA & NA\\
## Solyc00g126000 & NA & NA\\
## Solyc00g127660 & NA & NA\\
## Solyc00g245200 & ATCG00350 & Encodes psaA protein comprising the reaction center for photosystem I along with psaB protein; hydrophobic protein encoded by the chloroplast genome.\\
## \addlinespace
## Solyc00g282510 & AT2G37040 & encodes a protein similar to phenylalanine ammonia-lyase\\
## Solyc01g005600 & NA & NA\\
## Solyc01g005970 & AT1G55270 & kelch repeat-containing F-box family protein; similar to kelch repeat-containing F-box family protein [Arabidopsis thaliana] (TAIR:AT1G22040.1); similar to Cyclin-like F-box; Serine/threonine protein phosphatase, BSU1 [Medicago truncatula] (GB:ABE78679.1); similar to Os10g0409900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064574.1); similar to Cyclin-like F-box [Medicago truncatula] (GB:ABE86510.1); contains InterPro domain Cyclin-like F-box; (InterPro:IPR001810); contains InterPro domain Galactose oxidase, central; (InterPro:IPR011043); contains InterPro domain Kelch repeat; (InterPro:IPR006652)\\
## Solyc01g006340 & AT3G02065 & ATP binding / ATP-dependent helicase; Identical to DEAD-box ATP-dependent RNA helicase 41 (EC 3.6.1.-) (RH41) [Arabidopsis Thaliana] (GB:Q3EBD3;GB:Q8VZ85); similar to DEAD box RNA helicase, putative [Arabidopsis thaliana] (TAIR:AT2G42520.1); similar to putative DEAD box [Oryza sativa (japonica cultivar-group)] (GB:BAD15860.1); contains InterPro domain DEAD/DEAH box helicase; (InterPro:IPR001410); contains InterPro domain Zinc finger, HIT-type; (InterPro:IPR007529); contains InterPro domain DEAD/DEAH box helicase, N-terminal; (InterPro:IPR011545); contains InterPro domain Helicase, C-terminal; (InterPro:IPR001650)\\
## Solyc01g006390 & NA & NA\\
## \addlinespace
## Solyc01g006490 & AT5G13030 & similar to Os06g0320700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057514.1); similar to hypothetical protein ebA6654 [Azoarcus sp. EbN1] (GB:YP_160826.1); contains InterPro domain Protein of unknown function UPF0061; (InterPro:IPR003846)\\
## Solyc01g008780 & AT4G29070 & similar to hypothetical protein [Platanus x acerifolia] (GB:CAL07987.1); contains domain Phospholipase A2, PLA2 (SSF48619); contains domain no description (G3D.1.20.90.10)\\
## Solyc01g008970 & NA & NA\\
## Solyc01g017270 & NA & NA\\
## Solyc01g017330 & ATCG00350 & Encodes psaA protein comprising the reaction center for photosystem I along with psaB protein; hydrophobic protein encoded by the chloroplast genome.\\
## \addlinespace
## Solyc01g017500 & NA & NA\\
## Solyc01g017630 & ATMG00290 & encodes a mitochondrial ribosomal protein S4, a constituent of the small subunit of the ribosomal complex\\
## Solyc01g020130 & AT5G67230 & glycosyl transferase family 43 protein; similar to glycosyl transferase family 43 protein [Arabidopsis thaliana] (TAIR:AT4G36890.1); similar to glycosyltransferase [Poncirus trifoliata] (GB:CAI94901.1); contains InterPro domain Glycosyl transferase, family 43; (InterPro:IPR005027)\\
## Solyc01g034020 & AT3G58500 & encodes the third isoform of the catalytic subunit of protein phosphatase 2A.\\
## Solyc01g044360 & AT5G19820 & EMB2734 (EMBRYO DEFECTIVE 2734); lyase; similar to importin beta-2 subunit family protein [Arabidopsis thaliana] (TAIR:AT4G27640.1); similar to HEAT repeat family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF98397.1); similar to HEAT repeat family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF98400.1); similar to Armadillo-like helical [Medicago truncatula] (GB:ABD28408.1); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain HEAT; (InterPro:IPR000357)\\
## \addlinespace
## Solyc01g058160 & NA & NA\\
## Solyc01g058490 & NA & NA\\
## Solyc01g058500 & NA & NA\\
## Solyc01g060030 & NA & NA\\
## Solyc01g060150 & NA & NA\\
## \addlinespace
## Solyc01g065720 & AT3G16785 & Encodes a member of the PXPH-PLD subfamily of phospholipase D proteins. This subfamily is novel structurally different from the majority of plant PLDs by having phox homology (PX) and pleckstrin homology (PH) domains. Involved regulating root development in response to nutrient limitation. Does not appear to be involved in root hair patterning. Not induced upon Pi starvation.\\
## Solyc01g065780 & NA & NA\\
## Solyc01g067530 & NA & NA\\
## Solyc01g067790 & NA & NA\\
## Solyc01g068260 & NA & NA\\
## \addlinespace
## Solyc01g073740 & AT2G44350 & encodes a mitochrondrion targeted citrate synthase, the first enzyme of the tricarboxylic acid cycle, catalyzing the condensation of acetyl-CoA and oxaloacetate, finally yielding citrate and CoA.\\
## Solyc01g080780 & NA & NA\\
## Solyc01g081120 & NA & NA\\
## Solyc01g081470 & AT5G57300 & UbiE/COQ5 methyltransferase family protein; similar to UbiE/COQ5 methyltransferase family protein [Arabidopsis thaliana] (TAIR:AT1G23360.1); similar to SAM (and some other nucleotide) binding motif [Medicago truncatula] (GB:ABE77912.1); contains InterPro domain SAM (and some other nucleotide) binding motif; (InterPro:IPR000051); contains InterPro domain UbiE/COQ5 methyltransferase; (InterPro:IPR004033)\\
## Solyc01g087880 & AT3G52040 & similar to unknown [Hyacinthus orientalis] (GB:AAS20983.1)\\
## \addlinespace
## Solyc01g090400 & NA & NA\\
## Solyc01g091540 & NA & NA\\
## Solyc01g094410 & AT4G11610 & similar to C2 domain-containing protein [Arabidopsis thaliana] (TAIR:AT4G00700.1); similar to C2 domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G12970.1); similar to C2 domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G57880.1); similar to C2 [Medicago truncatula] (GB:ABD33426.1); similar to H0306F12.8 [Oryza sativa (indica cultivar-group)] (GB:CAJ86177.1); similar to C2 [Medicago truncatula] (GB:ABE85066.1); contains InterPro domain C2; (InterPro:IPR000008); contains InterPro domain Phosphoribosyltransferase C-terminal, plant; (InterPro:IPR013583); contains InterPro domain C2 calcium/lipid-binding region, CaLB; (InterPro:IPR008973)\\
## Solyc01g094570 & AT3G49050 & lipase class 3 family protein / calmodulin-binding heat-shock protein, putative; similar to lipase class 3 family protein / calmodulin-binding heat-shock protein-related [Arabidopsis thaliana] (TAIR:AT4G00500.2); similar to calmodulin binding heat shock protein [Gossypium hirsutum] (GB:AAV73918.1); similar to calmodulin-binding heat shock protein [Gossypium hirsutum] (GB:AAV65493.1); contains InterPro domain Lipase, class 3; (InterPro:IPR002921); contains InterPro domain Lipase 3, N-terminal; (InterPro:IPR005592)\\
## Solyc01g095370 & AT3G61590 & F-box family protein; similar to F-box family protein [Arabidopsis thaliana] (TAIR:AT5G15710.1); similar to F-box-like protein [Oryza sativa (japonica cultivar-group)] (GB:BAD20077.1); similar to Os02g0260200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046481.1); contains InterPro domain Cyclin-like F-box; (InterPro:IPR001810); contains InterPro domain Kelch; (InterPro:IPR011498); contains InterPro domain Galactose oxidase, central; (InterPro:IPR011043)\\
## \addlinespace
## Solyc01g095730 & AT3G61690 & nucleotidyltransferase; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G51620.2); similar to Nucleotidyltransferase domain containing protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF94595.1); similar to Os03g0210800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049344.1); contains InterPro domain PAP/25A core; (InterPro:IPR001201); contains InterPro domain DNA polymerase, beta-like region; (InterPro:IPR002934)\\
## Solyc01g096440 & NA & NA\\
## Solyc01g096460 & AT1G08315 & armadillo/beta-catenin repeat family protein; similar to armadillo/beta-catenin repeat family protein / U-box domain-containing protein [Arabidopsis thaliana] (TAIR:AT2G23140.1); similar to Armadillo [Medicago truncatula] (GB:ABE83790.1); contains InterPro domain Armadillo; (InterPro:IPR000225); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989)\\
## Solyc01g096950 & AT3G21060 & transducin family protein / WD-40 repeat family protein; similar to transducin family protein / WD-40 repeat family protein [Arabidopsis thaliana] (TAIR:AT2G43770.1); similar to hypothetical protein MtrDRAFT_AC147431g31v2 [Medicago truncatula] (GB:ABE88086.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc01g097030 & NA & NA\\
## \addlinespace
## Solyc01g097250 & AT4G02550 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G02210.1); similar to hypothetical protein MtrDRAFT_AC152405g9v1 [Medicago truncatula] (GB:ABE86214.1)\\
## Solyc01g097320 & AT3G04740 & encodes a protein with similarities to subunits of the Mediator complex, required for RNA polymerase II recruitment at target promoters in response to specific activators. Lines carrying loss of function mutations in the gene have reduced cell numbers in aerial organs. On the other hand, lines overexpressing the gene have increased number of small cells in clusters, suggesting cell division is more unsynchronized in the overexpressors.\\
## Solyc01g097640 & AT1G06720 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G42440.1); similar to PREDICTED: hypothetical protein LOC553241 isoform 2 [Danio rerio] (GB:XP_709801.1); similar to PREDICTED: hypothetical protein XP_679814 isoform 1 [Danio rerio] (GB:XP_684906.1); similar to unnamed protein product [Ostreococcus tauri] (GB:CAL57303.1); contains InterPro domain AARP2CN; (InterPro:IPR012948); contains InterPro domain Protein of unknown function DUF663; (InterPro:IPR007034)\\
## Solyc01g099130 & AT1G55000 & peptidoglycan-binding LysM domain-containing protein; similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAX95630.1); similar to Os03g0699600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050989.1); contains InterPro domain Cyclin-like F-box; (InterPro:IPR001810); contains InterPro domain Peptidoglycan-binding LysM; (InterPro:IPR002482)\\
## Solyc01g100240 & NA & NA\\
## \addlinespace
## Solyc01g100340 & AT1G09190 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G56310.1); similar to Pentatricopeptide repeat [Medicago truncatula] (GB:ABE84263.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990); contains InterPro domain Ppx/GppA phosphatase; (InterPro:IPR003695)\\
## Solyc01g102490 & AT4G32360 & NADP adrenodoxin-like ferredoxin reductase; similar to GLT1 (NADH-dependent glutamate synthase 1 gene) [Arabidopsis thaliana] (TAIR:AT5G53460.1); similar to NADPH:adrenodoxin oxidoreductase, mitochondrial precursor (Adrenodoxin reductase) (AR) (Ferredoxin reductase) (Ferredoxin--NADP(+) reductase) (GB:P82861); similar to Os02g0277600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046547.1); contains InterPro domain Pyridine nucleotide-disulphide oxidoreductase, class I; (InterPro:IPR001100); contains InterPro domain Adrenodoxin reductase; (InterPro:IPR000759); contains InterPro domain FAD-dependent pyridine nucleotide-disulphide oxidoreductase; (InterPro:IPR013027)\\
## Solyc01g102500 & NA & NA\\
## Solyc01g103720 & AT2G40360 & transducin family protein / WD-40 repeat family protein; similar to GTP binding / RNA binding [Arabidopsis thaliana] (TAIR:AT5G55660.1); similar to putative WD-40 repeat protein [Trifolium pratense] (GB:BAE71307.1); similar to WD40 [Cucumis melo] (GB:AAU04772.1); similar to putative transducin / WD-40 repeat protein [Oryza sativa (japonica cultivar-group)] (GB:BAC84089.1); contains InterPro domain BOP1, N-terminal; (InterPro:IPR012953); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc01g104930 & AT4G04910 & N-ethylmaleimide sensitive factor\\
## \addlinespace
## Solyc01g106380 & NA & NA\\
## Solyc01g107320 & AT5G02860 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT2G18940.1); similar to Os07g0590600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060154.1); similar to Os05g0275000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055073.1); similar to pentatricopeptide (PPR) repeat-containing protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD22929.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc01g107360 & AT4G34280 & transducin family protein / WD-40 repeat family protein; similar to WD-40 repeat family protein / katanin p80 subunit, putative [Arabidopsis thaliana] (TAIR:AT1G61210.1); similar to hypothetical protein DDBDRAFT_0190065 [Dictyostelium discoideum AX4] (GB:XP_646994.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046); contains InterPro domain Leucine-rich repeat, C-terminal associated; (InterPro:IPR003603)\\
## Solyc01g107430 & NA & NA\\
## Solyc01g107740 & NA & NA\\
## \addlinespace
## Solyc01g109890 & AT4G39150 & DNAJ heat shock N-terminal domain-containing protein; similar to DNAJ heat shock N-terminal domain-containing protein [Arabidopsis thaliana] (TAIR:AT2G21510.1); similar to Os08g0522600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062282.1); similar to Os05g0543700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056206.1); similar to putative dnaJ-like protein [Oryza sativa subsp. indica] (GB:AAD27555.1); contains InterPro domain Heat shock protein DnaJ; (InterPro:IPR003095); contains InterPro domain Heat shock protein DnaJ, N-terminal; (InterPro:IPR001623)\\
## Solyc01g110470 & AT2G21240 & ATBPC4/BBR/BPC4/BPC4 (BASIC PENTACYSTEINE 4); DNA binding / transcription factor; similar to ATBPC5/BBR/BPC5/BPC5 (BASIC PENTACYSTEINE 5), DNA binding / transcription factor [Arabidopsis thaliana] (TAIR:AT4G38910.1); similar to GAGA-binding transcriptional activator [Medicago truncatula] (GB:ABL10371.1); contains InterPro domain GAGA binding-like; (InterPro:IPR010409)\\
## Solyc01g110910 & NA & NA\\
## Solyc01g111460 & AT3G51260 & 20S proteosomal alpha subunits. Interacts with SnRK, SKP1/ASK1 during proteasomal binding of an SCF ubiquitin ligase.\\
## Solyc02g014790 & ATCG01280 & Identical to Protein ycf2 (ycf2-B) [Arabidopsis Thaliana] (GB:P56786); similar to hypothetical chloroplast RF2 [Vitis vinifera] (GB:YP_567121.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41290.1); similar to hypothetical chloroplast RF2 [Gossypium hirsutum] (GB:YP_538978.1); contains InterPro domain Chloroplast Ycf2; (InterPro:IPR008543); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
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## Solyc02g032390 & NA & NA\\
## Solyc02g032850 & NA & NA\\
## Solyc02g033040 & NA & NA\\
## Solyc02g043840 & NA & NA\\
## Solyc02g064590 & NA & NA\\
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## Solyc02g068140 & AT3G01930 & nodulin family protein; similar to nodulin family protein [Arabidopsis thaliana] (TAIR:AT5G14120.1); similar to nodulin-like protein [Poncirus trifoliata] (GB:AAN62343.1); similar to Os08g0532400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062339.1); similar to Os04g0388700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052632.1); contains InterPro domain Nodulin-like; (InterPro:IPR010658)\\
## Solyc02g068780 & NA & NA\\
## Solyc02g068800 & NA & NA\\
## Solyc02g069600 & NA & NA\\
## Solyc02g071600 & NA & NA\\
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## Solyc02g078360 & AT4G04950 & thioredoxin family protein; Identical to Monothiol glutaredoxin-S17 (AtGrxS17) (GRXS17) [Arabidopsis Thaliana] (GB:Q9ZPH2); similar to thioredoxin family protein [Arabidopsis thaliana] (TAIR:AT4G32580.1); similar to putative PKCq-interacting protein [Oryza sativa (japonica cultivar-group)] (GB:AAM93692.1); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Thioredoxin-related; (InterPro:IPR006662); contains InterPro domain Thioredoxin domain 2; (InterPro:IPR006663); contains InterPro domain Glutaredoxin; (InterPro:IPR002109); contains InterPro domain Thioredoxin domain; (InterPro:IPR013766); contains InterPro domain Thioredoxin fold; (InterPro:IPR012335); contains InterPro domain Glutaredoxin-related protein; (InterPro:IPR004480)\\
## Solyc02g078780 & AT2G20850 & SRF1; kinase; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT4G03390.1); similar to leucine-rich repeat transmembrane protein kinase 2 [Zea mays] (GB:AAC27895.1); similar to Os02g0176100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046061.1); similar to Os02g0190500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046150.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc02g079190 & AT3G62980 & Encodes an auxin receptor that mediates auxin-regulated transcription. It contains leucine-rich repeats and an F-box and interacts with ASK1, ASK2 and AtCUL1 to form SCF-TIR1, an SCF ubiquitin ligase complex. Related to yeast Grr1p and human SKP2 proteins, involved in ubiquitin-mediated processes. Required for normal response to auxin and repressed in response to flagellin. As part of the SCF complex and in the presence of auxin, TIR1 interacts with Aux/IAA transcriptional repressor proteins and mediates their degradation.\\
## Solyc02g079200 & AT1G61350 & armadillo/beta-catenin repeat family protein; similar to binding [Arabidopsis thaliana] (TAIR:AT2G45720.2); similar to Armadillo [Medicago truncatula] (GB:ABE88966.1); contains InterPro domain Armadillo; (InterPro:IPR000225); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989)\\
## Solyc02g079230 & NA & NA\\
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## Solyc02g079830 & NA & NA\\
## Solyc02g080580 & NA & NA\\
## Solyc02g081200 & AT1G62390 & octicosapeptide/Phox/Bem1p (PB1) domain-containing protein / tetratricopeptide repeat (TPR)-containing protein; similar to octicosapeptide/Phox/Bem1p (PB1) domain-containing protein / tetratricopeptide repeat (TPR)-containing protein [Arabidopsis thaliana] (TAIR:AT2G25290.1); similar to Octicosapeptide/Phox/Bem1p [Medicago truncatula] (GB:ABD32646.1); similar to Os09g0135400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062638.1); similar to Octicosapeptide/Phox/Bem1p [Medicago truncatula] (GB:ABE85285.1); contains InterPro domain Tetratricopeptide region; (InterPro:IPR013026); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990); contains InterPro domain Octicosapeptide/Phox/Bem1p; (InterPro:IPR000270)\\
## Solyc02g081230 & AT3G03210 & similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE83277.1)\\
## Solyc02g081260 & NA & NA\\
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## Solyc02g081910 & NA & NA\\
## Solyc02g082410 & AT4G35300 & TMT2 (TONOPLAST MONOSACCHARIDE TRANSPORTER2); carbohydrate transporter/ nucleoside transporter/ sugar porter; Identical to Monosaccharide-sensing protein 2 (Sugar transporter MSSP2) (MSSP2) [Arabidopsis Thaliana] (GB:Q8LPQ8;GB:O65497); similar to TMT3 (TONOPLAST MONOSACCHARIDE TRANSPORTER3), carbohydrate transporter/ nucleoside transporter/ sugar porter [Arabidopsis thaliana] (TAIR:AT3G51490.1); similar to TMT1 (TONOPLAST MONOSACCHARIDE TRANSPORTER1), carbohydrate transporter/ nucleoside transporter/ sugar porter [Arabidopsis thaliana] (TAIR:AT1G20840.1); similar to hexose transporter 6 [Vitis vinifera] (GB:AAX47312.1); similar to Sugar transporter superfamily; Major facilitator superfamily MFS_1 [Medicago truncatula] (GB:ABE78431.1); similar to putative hexose transporter [Vitis vinifera] (GB:AAY40466.1); contains InterPro domain Sugar transporter; (InterPro:IPR003663); contains InterPro domain Sugar transporter superfamily; (InterPro:IPR005829); contains InterPro domain Major facilitator superfamily; (InterPro:IPR007114); contains InterPro domain General substrate transporter; (InterPro:IPR005828)\\
## Solyc02g083200 & NA & NA\\
## Solyc02g083860 & AT3G51240 & Encodes flavanone 3-hydroxylase that is coordinately expressed with chalcone synthase and chalcone isomerases. Regulates flavonoid biosynthesis.\\
## Solyc02g084210 & AT5G66280 & GDP-D-mannose 4,6-dehydratase\\
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## Solyc02g085020 & AT5G42800 & dihydroflavonol reductase. Catalyzes the conversion of dihydroquercetin to leucocyanidin in the biosynthesis of anthocyanins.\\
## Solyc02g085520 & AT3G57610 & encoding adenylosuccinate synthetase (AdSS), the enzyme involved in the first step of the formation of the purine nucleotide AMP (conversion of IMP to adenylo-succinate)\\
## Solyc02g085740 & NA & NA\\
## Solyc02g086100 & AT2G18410 & similar to Os03g0201700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049299.1)\\
## Solyc02g086860 & NA & NA\\
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## Solyc02g090380 & NA & NA\\
## Solyc02g090400 & NA & NA\\
## Solyc02g091280 & AT1G66670 & One of several nuclear-encoded ClpPs (caseinolytic protease). Contains a highly conserved catalytic triad of Ser-type proteases (Ser-His-Asp). The name reflects nomenclature described in Adam et. al (2001).\\
## Solyc02g093560 & NA & NA\\
## Solyc03g005440 & NA & NA\\
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## Solyc03g006510 & NA & NA\\
## Solyc03g007250 & AT5G53130 & member of Cyclic nucleotide gated channel family\\
## Solyc03g007390 & AT5G40400 & binding; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G55840.1); similar to Pentatricopeptide repeat [Medicago truncatula] (GB:ABE84479.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc03g025190 & AT4G25640 & MATE efflux family protein; similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT4G00350.1); similar to Multi antimicrobial extrusion protein MatE [Medicago truncatula] (GB:ABE85324.1); similar to putative anthocyanin permease [Lycopersicon esculentum] (GB:AAQ55183.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## Solyc03g025460 & NA & NA\\
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## Solyc03g026150 & NA & NA\\
## Solyc03g033460 & AT4G10770 & oligopeptide transporter\\
## Solyc03g033630 & NA & NA\\
## Solyc03g033830 & NA & NA\\
## Solyc03g043620 & NA & NA\\
## \addlinespace
## Solyc03g046480 & NA & NA\\
## Solyc03g059490 & AT3G02130 & leucine-rich repeat transmembrane protein kinase, putative; similar to RPK1 (RECEPTOR-LIKE PROTEIN KINASE 1), kinase [Arabidopsis thaliana] (TAIR:AT1G69270.1); similar to leucine-rich repeat-containing protein kinase family protein [Musa acuminata] (GB:ABF72006.1); similar to Os07g0602700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060207.1); similar to putative protein kinase [Sorghum bicolor] (GB:AAM47583.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, typical subtype; (InterPro:IPR003591); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc03g062850 & NA & NA\\
## Solyc03g063390 & NA & NA\\
## Solyc03g063790 & NA & NA\\
## \addlinespace
## Solyc03g071770 & ATCG00170 & RNA polymerase beta' subunit-2\\
## Solyc03g078350 & AT1G49170 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G63440.3); similar to Protein of unknown function DUF167 [Medicago truncatula] (GB:ABE81179.1); contains InterPro domain Protein of unknown function DUF167; (InterPro:IPR003746)\\
## Solyc03g080130 & ATCG01280 & Identical to Protein ycf2 (ycf2-B) [Arabidopsis Thaliana] (GB:P56786); similar to hypothetical chloroplast RF2 [Vitis vinifera] (GB:YP_567121.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41290.1); similar to hypothetical chloroplast RF2 [Gossypium hirsutum] (GB:YP_538978.1); contains InterPro domain Chloroplast Ycf2; (InterPro:IPR008543); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc03g083160 & NA & NA\\
## Solyc03g083350 & AT5G24240 & phosphatidylinositol 3- and 4-kinase family protein / ubiquitin family protein; similar to phosphatidylinositol 3- and 4-kinase family protein / ubiquitin family protein [Arabidopsis thaliana] (TAIR:AT2G46500.2); similar to Phosphatidylinositol 3- and 4-kinase, catalytic; Ubiquitin [Medicago truncatula] (GB:ABE80823.1); contains InterPro domain Phosphatidylinositol 3- and 4-kinase, catalytic; (InterPro:IPR000403); contains InterPro domain Ubiquitin; (InterPro:IPR000626)\\
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## Solyc03g094090 & NA & NA\\
## Solyc03g095230 & NA & NA\\
## Solyc03g097030 & AT1G65060 & encodes an isoform of 4-coumarate:CoA ligase (4CL), which is involved in the last step of the general phenylpropanoid pathway. mRNA levels are not induced in response to wounding or to fungal infection by P. parasitica. mRNA is expressed in flowers, to a lesser degree in mature leaves and siliques and marginally in seedling roots and bolting stems of mature plants. The catalytic efficiency was in the following (descending) order: p-coumaric acid, caffeic acid, ferulic acid, cinnamic acid and 5-OH-ferulic acid. At4CL3 was unable to use sinapic acid as substrate.\\
## Solyc03g097390 & AT1G08510 & Encodes an acyl-acyl carrier protein thioesterase. Hydrolyzes primarily saturated acyl-ACPs with chain lengths that vary between 8 and 18 carbons. Involved in saturated fatty acid synthesis. Nuclear-encoded, plastid-targeted globular protein that is functional as dimer.\\
## Solyc03g097760 & NA & NA\\
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## Solyc03g098650 & NA & NA\\
## Solyc03g098710 & NA & NA\\
## Solyc03g098780 & NA & NA\\
## Solyc03g111500 & NA & NA\\
## Solyc03g111810 & NA & NA\\
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## Solyc03g113390 & AT1G18890 & encodes a calcium-dependent protein kinase whose gene expression is induced by dehydration and high salt. Kinase activity could not be detected in vitro.\\
## Solyc03g114010 & NA & NA\\
## Solyc03g116830 & NA & NA\\
## Solyc03g117050 & AT1G80760 & Similar to gb:D17443 major intrinsic protein from Oryza sativa\\
## Solyc03g117340 & NA & NA\\
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## Solyc03g120620 & AT1G79840 & Glabra 2, a homeodomain protein affects epidermal cell identity including trichomes, root hairs, and seed coat. It also down-regulates seed oil content. Expressed in atrichoblasts and required to suppress root hair development. Also expressed abundantly during early seed development.\\
## Solyc04g005860 & AT1G59650 & Encodes CW14.\\
## Solyc04g007230 & AT1G25420 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G34220.2); similar to Os08g0175200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061111.1); similar to Os01g0687700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043915.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD46466.1); contains InterPro domain Protein of unknown function DUF292, eukaryotic; (InterPro:IPR005061)\\
## Solyc04g009230 & AT5G08290 & Encodes Dim1 homolog.\\
## Solyc04g009450 & NA & NA\\
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## Solyc04g009520 & AT3G53340 & CCAAT-box binding transcription factor, putative; Identical to Nuclear transcription factor Y subunit B-10 (AtNF-YB-10) (NFYB10) [Arabidopsis Thaliana] (GB:Q67XJ2;GB:Q9LFI3); similar to CCAAT-box binding transcription factor, putative [Arabidopsis thaliana] (TAIR:AT2G37060.3); similar to transcription factor NF-Y CCAAT-binding-like protein-like [Solanum tuberosum] (GB:ABB55377.1); contains InterPro domain Histone-fold; (InterPro:IPR009072); contains InterPro domain Transcription factor CBF/NF-Y/archaeal histone; (InterPro:IPR003958); contains InterPro domain Histone-like transcription factor CBF/NF-Y/archaeal histone, subunit A; (InterPro:IPR003956); contains InterPro domain Histone-like transcription factor/archaeal histone/DNA topoisomerase; (InterPro:IPR003957); contains InterPro domain Histone-fold/TFIID-TAF/NF-Y; (InterPro:IPR007124)\\
## Solyc04g009960 & AT1G08630 & Encodes a threonine aldolase, involved in threonine degradation to glycine. Primarily expressed in seeds and seedlings.\\
## Solyc04g012080 & NA & NA\\
## Solyc04g014210 & AT5G10370 & helicase domain-containing protein / IBR domain-containing protein / zinc finger protein-related; similar to helicase domain-containing protein / IBR domain-containing protein / zinc finger protein-related [Arabidopsis thaliana] (TAIR:AT4G01020.1); similar to von Willebrand factor, type C; Zinc finger, RING-type; Zinc finger, C6HC-type; Zinc finger, C2H2-type; ATP-dependent helicase HrpA [Medicago truncatula] (GB:ABE91801.1); similar to 117M18_19 [Brassica rapa] (GB:AAZ66938.1); similar to Zinc finger, RING-type; Zinc finger, C6HC-type; Zinc finger, C2H2-type; ATP-dependent helicase HrpA [Medicago truncatula] (GB:ABE84401.1); contains InterPro domain ATP-dependent helicase, DEAH-box; (InterPro:IPR002464); contains InterPro domain Helicase-associated region; (InterPro:IPR007502); contains InterPro domain DEAD/DEAH box helicase; (InterPro:IPR001410); contains InterPro domain Protein of unknown function DUF1605; (InterPro:IPR011709); contains InterPro domain DEAD/DEAH box helicase, N-terminal; (InterPro:IPR011545); contains InterPro domain Zinc finger, C6HC-type; (InterPro:IPR002867); contains InterPro domain Helicase, C-terminal; (InterPro:IPR001650); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841); contains InterPro domain KH, type 1; (InterPro:IPR004088)\\
## Solyc04g014910 & NA & NA\\
## \addlinespace
## Solyc04g018190 & ATCG01280 & Identical to Protein ycf2 (ycf2-B) [Arabidopsis Thaliana] (GB:P56786); similar to hypothetical chloroplast RF2 [Vitis vinifera] (GB:YP_567121.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41290.1); similar to hypothetical chloroplast RF2 [Gossypium hirsutum] (GB:YP_538978.1); contains InterPro domain Chloroplast Ycf2; (InterPro:IPR008543); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc04g018250 & ATCG00170 & RNA polymerase beta' subunit-2\\
## Solyc04g024550 & ATCG01280 & Identical to Protein ycf2 (ycf2-B) [Arabidopsis Thaliana] (GB:P56786); similar to hypothetical chloroplast RF2 [Vitis vinifera] (GB:YP_567121.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41290.1); similar to hypothetical chloroplast RF2 [Gossypium hirsutum] (GB:YP_538978.1); contains InterPro domain Chloroplast Ycf2; (InterPro:IPR008543); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc04g049630 & AT5G36210 & serine-type peptidase; similar to acylaminoacyl-peptidase-related [Arabidopsis thaliana] (TAIR:AT4G14570.1); similar to Os06g0215400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057138.1); similar to Os06g0215300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057137.1); similar to peptidase S9, prolyl oligopeptidase active site re (GB:YP_721155.1); contains InterPro domain Peptidase S9, prolyl oligopeptidase active site region; (InterPro:IPR001375); contains InterPro domain Cytochrome cd1-nitrite reductase-like, C-terminal haem d1; (InterPro:IPR011048); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain TolB, C-terminal; (InterPro:IPR011042)\\
## Solyc04g049850 & NA & NA\\
## \addlinespace
## Solyc04g050480 & AT5G38890 & exoribonuclease-related; similar to exoribonuclease-like [Oryza sativa (japonica cultivar-group)] (GB:BAD22001.1); similar to Os02g0815800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048506.1); contains InterPro domain Nucleic acid-binding, OB-fold, subgroup; (InterPro:IPR012340); contains InterPro domain Nucleic acid-binding, OB-fold; (InterPro:IPR008994); contains InterPro domain RNA binding S1; (InterPro:IPR003029)\\
## Solyc04g050790 & NA & NA\\
## Solyc04g050810 & AT5G10170 & inositol-3-phosphate synthase, putative / myo-inositol-1-phosphate synthase, putative / MI-1-P synthase, putative; Identical to Probable inositol-3-phosphate synthase isozyme 3 (EC 5.5.1.4) (Myo- inositol-1-phosphate synthase 3) (MI-1-P synthase 3) (IPS 3) [Arabidopsis Thaliana] (GB:Q9LX12); similar to MI-1-P SYNTHASE (Myo-inositol-1-phosphate synthase), inositol-3-phosphate synthase [Arabidopsis thaliana] (TAIR:AT4G39800.1); similar to inositol-3-phosphate synthase isozyme 2 / myo-inositol-1-phosphate synthase 2 / MI-1-P synthase 2 / IPS 2 [Arabidopsis thaliana] (TAIR:AT2G22240.1); similar to Inositol-3-phosphate synthase (Myo-inositol-1-phosphate synthase) (MI-1-P synthase) (IPS) (GB:Q9LW96); similar to 4D11_18 [Brassica rapa subsp. pekinensis] (GB:AAZ67532.1); similar to Inositol-3-phosphate synthase (Myo-inositol-1-phosphate synthase) (MI-1-P synthase) (IPS) (GB:Q9SSV4); contains InterPro domain Myo-inositol-1-phosphate synthase, GAPDH-like; (InterPro:IPR013021); contains InterPro domain Myo-inositol-1-phosphate synthase; (InterPro:IPR002587)\\
## Solyc04g050860 & AT4G39800 & Columbia myo-inositol-1-phosphate synthase mRNA, complete\\
## Solyc04g051130 & NA & NA\\
## \addlinespace
## Solyc04g051150 & AT3G07020 & UDP-glucose:sterol glucosyltransferase (UGT80A2); similar to UDP-glucose:sterol glucosyltransferase, putative [Arabidopsis thaliana] (TAIR:AT1G43620.3); similar to UDP-glucose:sterol 3-O-glucosyltransferase [Panax (GB:BAC22616.1); similar to Glycosyl transferase, family 28 [Medicago truncatula] (GB:ABE85238.1); similar to UDP-glucose:sterol 3-O-glucosyltransferase [Panax (GB:BAC22617.1); contains InterPro domain UDP-glucuronosyl/UDP-glucosyltransferase; (InterPro:IPR002213); contains InterPro domain Glycosyl transferase, family 28; (InterPro:IPR004276)\\
## Solyc04g051490 & NA & NA\\
## Solyc04g054290 & AT2G22070 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT1G25360.1); similar to Os02g0106300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045627.1); similar to Os03g0775400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051430.1); similar to PPR868-14 [Physcomitrella patens] (GB:BAD67154.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc04g054740 & AT5G10170 & inositol-3-phosphate synthase, putative / myo-inositol-1-phosphate synthase, putative / MI-1-P synthase, putative; Identical to Probable inositol-3-phosphate synthase isozyme 3 (EC 5.5.1.4) (Myo- inositol-1-phosphate synthase 3) (MI-1-P synthase 3) (IPS 3) [Arabidopsis Thaliana] (GB:Q9LX12); similar to MI-1-P SYNTHASE (Myo-inositol-1-phosphate synthase), inositol-3-phosphate synthase [Arabidopsis thaliana] (TAIR:AT4G39800.1); similar to inositol-3-phosphate synthase isozyme 2 / myo-inositol-1-phosphate synthase 2 / MI-1-P synthase 2 / IPS 2 [Arabidopsis thaliana] (TAIR:AT2G22240.1); similar to Inositol-3-phosphate synthase (Myo-inositol-1-phosphate synthase) (MI-1-P synthase) (IPS) (GB:Q9LW96); similar to 4D11_18 [Brassica rapa subsp. pekinensis] (GB:AAZ67532.1); similar to Inositol-3-phosphate synthase (Myo-inositol-1-phosphate synthase) (MI-1-P synthase) (IPS) (GB:Q9SSV4); contains InterPro domain Myo-inositol-1-phosphate synthase, GAPDH-like; (InterPro:IPR013021); contains InterPro domain Myo-inositol-1-phosphate synthase; (InterPro:IPR002587)\\
## Solyc04g072880 & AT5G27620 & core cell cycle genes\\
## \addlinespace
## Solyc04g074070 & AT1G34580 & monosaccharide transporter, putative; Identical to Sugar transport protein 5 (Hexose transporter 5) (STP5) [Arabidopsis Thaliana] (GB:Q93Y91;GB:Q9LNM0); similar to STP1 (SUGAR TRANSPORTER 1), carbohydrate transporter/ sugar porter [Arabidopsis thaliana] (TAIR:AT1G11260.1); similar to hexose transporter HT2 [Vitis vinifera] (GB:AAT77693.2); similar to monosaccharide transporter [Populus tremula x Populus tremuloides] (GB:CAG27606.1); contains InterPro domain Sugar transporter; (InterPro:IPR003663); contains InterPro domain Sugar transporter superfamily; (InterPro:IPR005829); contains InterPro domain Major facilitator superfamily; (InterPro:IPR007114); contains InterPro domain General substrate transporter; (InterPro:IPR005828)\\
## Solyc04g076410 & NA & NA\\
## Solyc04g077100 & NA & NA\\
## Solyc04g077460 & AT3G30390 & amino acid transporter family protein; similar to amino acid transporter family protein [Arabidopsis thaliana] (TAIR:AT5G38820.1); similar to Os06g0633800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058132.1); similar to putative N system amino acids transporter NAT-1 [Oryza sativa (japonica cultivar-group)] (GB:BAD73448.1); similar to Os02g0727100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047994.1); contains InterPro domain Amino acid/polyamine transporter II; (InterPro:IPR002422); contains InterPro domain Amino acid transporter, transmembrane; (InterPro:IPR013057)\\
## Solyc04g079340 & AT4G37080 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G42690.2); similar to Os03g0859900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051971.1); similar to Os09g0463300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063405.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAP44737.1); contains InterPro domain Protein of unknown function DUF547; (InterPro:IPR006869)\\
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## Solyc04g080200 & NA & NA\\
## Solyc04g080480 & NA & NA\\
## Solyc04g081050 & AT1G05150 & calcium-binding EF hand family protein; similar to calcium-binding EF hand family protein [Arabidopsis thaliana] (TAIR:AT2G32450.1); similar to Os03g0263900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049638.1); similar to O-GlcNAc-transferase-like protein [Castanea sativa] (GB:AAL15891.1); contains InterPro domain Tetratricopeptide region; (InterPro:IPR013026); contains InterPro domain Tetratricopeptide TPR_1; (InterPro:IPR001440); contains InterPro domain Calcium-binding EF-hand; (InterPro:IPR002048); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide TPR_2; (InterPro:IPR013105); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc05g005210 & AT1G10650 & protein binding / zinc ion binding; similar to protein binding / zinc ion binding [Arabidopsis thaliana] (TAIR:AT1G60610.2); similar to Os02g0130300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045784.1); similar to putative S-ribonuclease binding protein SBP1 [Oryza sativa (japonica cultivar-group)] (GB:BAD07738.1); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc05g005630 & NA & NA\\
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## Solyc05g005670 & NA & NA\\
## Solyc05g005810 & NA & NA\\
## Solyc05g006320 & NA & NA\\
## Solyc05g007290 & AT5G19420 & zinc finger protein, putative / regulator of chromosome condensation (RCC1) family protein; similar to zinc finger protein, putative / regulator of chromosome condensation (RCC1) family protein [Arabidopsis thaliana] (TAIR:AT5G42140.1); similar to zinc finger protein (PRAF1) / regulator of chromosome condensation (RCC1) family protein [Arabidopsis thaliana] (TAIR:AT1G76950.1); similar to Ran GTPase binding / chromatin binding / zinc ion binding [Arabidopsis thaliana] (TAIR:AT5G12350.1); similar to Pleckstrin-like; Regulator of chromosome condensation/beta-lactamase-inhibitor protein II; Zinc finger, FYVE/PHD-type [Medicago truncatula] (GB:ABE89832.1); similar to unknown prtein [Oryza sativa (japonica cultivar-group)] (GB:AAT77332.1); similar to putative ZR1 protein [Oryza sativa (japonica cultivar-group)] (GB:BAD87854.1); contains InterPro domain Zinc finger, FYVE/PHD-type; (InterPro:IPR011011); contains InterPro domain Regulator of chromosome condensation, RCC1; (InterPro:IPR000408); contains InterPro domain Regulator of chromosome condensation/beta-lactamase-inhibitor protein II; (InterPro:IPR009091); contains InterPro domain Disease resistance/zinc finger/chromosome condensation-like region; (InterPro:IPR013591); contains InterPro domain Zinc finger, FYVE-type; (InterPro:IPR000306)\\
## Solyc05g008070 & NA & NA\\
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## Solyc05g009730 & NA & NA\\
## Solyc05g010320 & AT3G55120 & Catalyzes the conversion of chalcones into flavanones. Required for the accumulation of purple anthocyanins in leaves and stems.\\
## Solyc05g012190 & AT2G03670 & CDC48 - like protein AAA-type ATPaseCell. division control protein 48 homolog B\\
## Solyc05g012320 & AT5G63010 & WD-40 repeat family protein; similar to COP1 (CONSTITUTIVE PHOTOMORPHOGENIC 1) [Arabidopsis thaliana] (TAIR:AT2G32950.1); similar to Os04g0507900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053266.1); similar to PREDICTED: similar to CG3184-PA [Danio rerio] (GB:XP_692484.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc05g012440 & NA & NA\\
## \addlinespace
## Solyc05g012620 & AT2G03390 & uvrB/uvrC motif-containing protein; similar to PREDICTED: similar to F-box only protein 21 isoform 2 [Canis familiaris] (GB:XP_543416.2); similar to PREDICTED: similar to F-box only protein 21 [Rattus norve (GB:XP_341092.3); similar to Os08g0172200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061100.1); contains InterPro domain Hemimethylated DNA-binding region; (InterPro:IPR011722); contains InterPro domain UvrB/UvrC protein; (InterPro:IPR001943)\\
## Solyc05g013040 & AT1G13980 & Encodes a GDP/GTP exchange factor for small G-proteins of the ADP ribosylation factor (RAF) class, and as regulator of intracellular trafficking. Homologous to Sec7p and YEC2 from yeast. Involved in the specification of apical-basal pattern formation. Essential for cell division, expansion and adhesion.\\
## Solyc05g013160 & AT1G14030 & ribulose-1,5 bisphosphate carboxylase oxygenase large subunit N-methyltransferase, putative; Identical to Probable ribulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplast precursor (EC 2.1.1.127) ([Ribulose- bisphosphate carboxylase]-lysine N-methyltransferase) (RuBisCO methyltransferase) (RuBisCO LSMT) (rbcMT) (RBCMT) [Arabidopsis Thaliana] (GB:Q9XI84); similar to SET domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G07670.1); similar to Ribulose-1,5 bisphosphate carboxylase/oxygenase large subunit N-methyltransferase, chloroplast precursor ([Ribulose-bisphosphate carboxylase]-lysine N-methyltransferase) (RuBisCO methyltransferase) (RuBisCO LSMT) (rbcMT) (GB:P94026); contains InterPro domain Rubisco methyltransferase; (InterPro:IPR011192); contains InterPro domain Nuclear protein SET; (InterPro:IPR001214)\\
## Solyc05g014160 & AT3G26090 & encodes a regulator of G-protein signaling protein. Lines over-expressing the gene are more tolerant to dehydration and root elongation. These phenotypes are dependent on ABA.\\
## Solyc05g015710 & NA & NA\\
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## Solyc05g018640 & NA & NA\\
## Solyc05g021570 & NA & NA\\
## Solyc05g023920 & AT2G07785 & NADH-ubiquinone oxidoreductase, putative; similar to NADH dehydrogenase (ubiquinone) (GB:AAA70292.1); contains InterPro domain Respiratory-chain NADH dehydrogenase, subunit 1; (InterPro:IPR001694)\\
## Solyc05g025570 & NA & NA\\
## Solyc05g040050 & NA & NA\\
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## Solyc05g045740 & NA & NA\\
## Solyc05g045750 & NA & NA\\
## Solyc05g047440 & ATCG01130 & Identical to Putative membrane protein ycf1 (ycf1-B) [Arabidopsis Thaliana] (GB:P56785); similar to hypothetical chloroplast RF1 [Gossypium hirsutum] (GB:YP_538982.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41305.1); similar to hypothetical chloroplast RF1 [Eucalyptus globulus subsp. globulus] (GB:YP_636357.1); contains InterPro domain Ycf1; (InterPro:IPR008896)\\
## Solyc05g047540 & AT3G42630 & pentatricopeptide (PPR) repeat-containing protein; similar to binding [Arabidopsis thaliana] (TAIR:AT4G14190.1); similar to pentatricopeptide repeat protein [Capsella rubella] (GB:ABA18107.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885)\\
## Solyc05g053330 & NA & NA\\
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## Solyc05g053570 & AT1G15520 & ABC transporter family involved in resistant to lead. Localizes to plasma membrane. Upregulated by lead. Expressed in leaves, flowers. Not expressed in roots.\\
## Solyc05g053600 & AT1G15520 & ABC transporter family involved in resistant to lead. Localizes to plasma membrane. Upregulated by lead. Expressed in leaves, flowers. Not expressed in roots.\\
## Solyc05g054770 & NA & NA\\
## Solyc05g055530 & AT5G03470 & Encodes B' regulatory subunit of PP2A (AtB'alpha), putative size of 57 kDa.\\
## Solyc05g056130 & AT2G01720 & ribophorin I family protein; similar to ribophorin I family protein [Arabidopsis thaliana] (TAIR:AT1G76400.1); similar to Os05g0301500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055134.1); similar to putative ribophorin I homologue [Hordeum vulgare subsp. vulgare] (GB:CAA74910.1); contains InterPro domain Ribophorin I; (InterPro:IPR007676)\\
## \addlinespace
## Solyc06g005210 & NA & NA\\
## Solyc06g005520 & AT2G28940 & protein kinase family protein; similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT2G39110.1); similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT3G09830.2); similar to Os02g0819600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048536.1); similar to protein serine/threonine kinase [Lophopyrum elongatum] (GB:AAF43496.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719)\\
## Solyc06g006090 & NA & NA\\
## Solyc06g007270 & NA & NA\\
## Solyc06g007350 & AT2G30170 & catalytic; similar to 5-azacytidine resistance protein -related [Arabidopsis thaliana] (TAIR:AT5G66720.2); similar to Os01g0164600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042103.1); similar to putative senescence-associated protein [Pisum sativum] (GB:BAB33413.1); contains InterPro domain Protein phosphatase 2C-like; (InterPro:IPR001932)\\
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## Solyc06g007380 & AT5G01710 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G24805.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAC75560.1); contains InterPro domain Methyltransferase FkbM; (InterPro:IPR006342)\\
## Solyc06g007850 & NA & NA\\
## Solyc06g008490 & NA & NA\\
## Solyc06g009070 & AT2G47680 & zinc finger (CCCH type) helicase family protein; similar to helicase domain-containing protein [Arabidopsis thaliana] (TAIR:AT2G35920.1); similar to Zinc finger, CCCH-type; Beta-lactamase, class A; DEAD/DEAH box helicase [Medicago truncatula] (GB:ABE84992.1); similar to Os01g0256800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042628.1); similar to ATP-dependent RNA helicase A -like [Oryza sativa (japonica cultivar-group)] (GB:BAE95808.1); contains InterPro domain DEAD/DEAH box helicase; (InterPro:IPR001410); contains InterPro domain DEAD/DEAH box helicase, N-terminal; (InterPro:IPR011545); contains InterPro domain Helicase, C-terminal; (InterPro:IPR001650); contains InterPro domain Zinc finger, CCCH-type; (InterPro:IPR000571)\\
## Solyc06g010200 & NA & NA\\
## \addlinespace
## Solyc06g010220 & NA & NA\\
## Solyc06g016830 & NA & NA\\
## Solyc06g024210 & NA & NA\\
## Solyc06g024230 & NA & NA\\
## Solyc06g024240 & NA & NA\\
## \addlinespace
## Solyc06g024250 & NA & NA\\
## Solyc06g024270 & NA & NA\\
## Solyc06g024290 & NA & NA\\
## Solyc06g024340 & NA & NA\\
## Solyc06g024350 & NA & NA\\
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## Solyc06g024360 & NA & NA\\
## Solyc06g024370 & NA & NA\\
## Solyc06g024380 & NA & NA\\
## Solyc06g035600 & NA & NA\\
## Solyc06g051780 & AT2G39740 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G45750.1); similar to Os01g0846500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044790.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAD81827.1); contains InterPro domain PAP/25A-associated; (InterPro:IPR002058); contains InterPro domain PAP/25A core; (InterPro:IPR001201)\\
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## Solyc06g059800 & AT1G76990 & ACR3 (ACT Domain Repeat 3); similar to ACR4 (ACT REPEAT 4), amino acid binding [Arabidopsis thaliana] (TAIR:AT1G69040.2); similar to Os02g0555600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047123.1); similar to ACT domain, putative [Medicago truncatula] (GB:ABE90521.1); similar to Os03g0413100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050359.1); contains InterPro domain Amino acid-binding ACT; (InterPro:IPR002912)\\
## Solyc06g060940 & AT4G17570 & zinc finger (GATA type) family protein; Identical to GATA transcription factor 28 [Arabidopsis Thaliana] (GB:Q8W4H1;GB:O23598); similar to zinc finger (GATA type) family protein [Arabidopsis thaliana] (TAIR:AT5G47140.1); similar to GATA zinc finger containing protein [Brassica oleracea] (GB:ABD65071.1); contains InterPro domain Zinc finger, GATA-type; (InterPro:IPR000679)\\
## Solyc06g066320 & AT1G32130 & similar to IWS1 C-terminus family protein [Arabidopsis thaliana] (TAIR:AT4G19000.1); similar to Os01g0147200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042011.1); similar to unnamed protein product [Ostreococcus tauri] (GB:CAL53710.1); contains InterPro domain IWS1, C-terminal; (InterPro:IPR008654); contains InterPro domain Transcription factors TFIIS, elongin A, CRSP70, conserved; (InterPro:IPR010990)\\
## Solyc06g068910 & AT1G48480 & Arabidopsis thaliana receptor-like protein kinase (RKL1) gene\\
## Solyc06g069380 & AT5G15740 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G02250.1); similar to hypothetical protein [Cleome spinosa] (GB:ABD96934.1); similar to Os06g0284200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057398.1); similar to hypothetical protein [Cleome spinosa] (GB:ABD96844.1); contains InterPro domain Protein of unknown function DUF246, plant; (InterPro:IPR004348)\\
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## Solyc06g071530 & AT4G14320 & 60S ribosomal protein L36a/L44 (RPL36aB); Identical to 60S ribosomal protein L36a (RPL36AB) [Arabidopsis Thaliana] (GB:O23290;GB:Q7GD84); similar to 60S ribosomal protein L36a/L44 (RPL36aA) [Arabidopsis thaliana] (TAIR:AT3G23390.1); similar to 60S ribosomal protein L144 [Brassica rapa subsp. pekinensis] (GB:AAK94425.1); contains InterPro domain Ribosomal protein L44E; (InterPro:IPR000552)\\
## Solyc06g073760 & AT5G20950 & glycosyl hydrolase family 3 protein; similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT3G62710.1); similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT5G20940.1); similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT5G04885.1); similar to beta-D-glucan exohydrolase [Nicotiana tabacum] (GB:BAA33065.1); similar to beta-D-glucosidase [Tropaeolum majus] (GB:CAA07070.1); similar to beta-D-glucosidase [Gossypium hirsutum] (GB:AAQ17461.1); contains InterPro domain Glycoside hydrolase, family 3, C-terminal; (InterPro:IPR002772); contains InterPro domain Glycoside hydrolase, family 3, N-terminal; (InterPro:IPR001764)\\
## Solyc06g075540 & AT3G45740 & hydrolase family protein / HAD-superfamily protein; similar to Peptidase S26A, signal peptidase I; HAD-superfamily hydrolase, subfamily IIA [Medicago truncatula] (GB:ABE81736.1); contains InterPro domain HAD-superfamily subfamily IIA hydrolase, CECR5; (InterPro:IPR006353); contains InterPro domain HAD-superfamily hydrolase, subfamily IIA; (InterPro:IPR006357)\\
## Solyc06g082890 & AT2G39780 & S-like ribonuclease\\
## Solyc06g083350 & NA & NA\\
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## Solyc07g005590 & AT5G57940 & member of Cyclic nucleotide gated channel family\\
## Solyc07g006580 & AT4G30340 & encodes a diacylglycerol kinase. Applying a specific diacylglycerol kinase inhibitor to the growth media resulted in reduced root elongation and plant growth. Gene is expressed throughout the plant but is strongest in flowers and young seedlings.\\
## Solyc07g007120 & AT5G25220 & A member of class II knotted1-like homeobox gene family (together with KNAT4 and KNAT5). Expressed in: hypocotyl-root boundary, anther-filament junction in flowers, ovule-funiculus and peduncle-silique boundaries, petioles and root. Light-regulated expression with differential response to red/far-red light. KNAT3 promoter activity showed cell-type specific pattern along longitudinal root axis, restricted mainly to the differentiation zone of the root, namely in the cortex and pericycle. Not detected in lateral root primordia\\
## Solyc07g018000 & NA & NA\\
## Solyc07g018340 & NA & NA\\
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## Solyc07g021280 & ATCG00160 & Chloroplast ribosomal protein S2\\
## Solyc07g025530 & NA & NA\\
## Solyc07g026660 & NA & NA\\
## Solyc07g039290 & NA & NA\\
## Solyc07g040910 & NA & NA\\
## \addlinespace
## Solyc07g047890 & NA & NA\\
## Solyc07g049200 & AT1G05060 & similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE78856.1)\\
## Solyc07g054170 & AT4G28250 & putative beta-expansin/allergen protein. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio). Involved in the formation of nematode-induced syncytia in roots of Arabidopsis thaliana.\\
## Solyc07g055900 & NA & NA\\
## Solyc07g061760 & NA & NA\\
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## Solyc07g062070 & AT1G17160 & pfkB-type carbohydrate kinase family protein; similar to pfkB-type carbohydrate kinase family protein [Arabidopsis thaliana] (TAIR:AT1G06030.1); similar to Os01g0665400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043796.1); similar to Ribokinase [Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842] (GB:YP_618630.1); contains InterPro domain PfkB; (InterPro:IPR011611); contains InterPro domain Carbohydrate kinase, PfkB; (InterPro:IPR002173); contains InterPro domain Ribokinase; (InterPro:IPR002139)\\
## Solyc07g062110 & NA & NA\\
## Solyc07g064710 & AT3G20480 & tetraacyldisaccharide 4'-kinase family protein; similar to Os07g0102000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058679.1); similar to Tetraacyldisaccharide-1-P 4'-kinase [Halothermothrix orenii H 168] (GB:ZP_01189426.1); contains InterPro domain Tetraacyldisaccharide-1-P 4' (InterPro:IPR003758)\\
## Solyc07g065210 & NA & NA\\
## Solyc08g014000 & AT1G55020 & lipoxygenase, a defense gene conferring resistance Xanthomonas campestris\\
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## Solyc08g014120 & AT1G05710 & ethylene-responsive protein, putative; similar to ethylene-responsive protein, putative [Arabidopsis thaliana] (TAIR:AT2G31730.1); similar to ER33 protein [Lycopersicon esculentum] (GB:AAD46413.1); contains InterPro domain Helix-loop-helix DNA-binding; (InterPro:IPR011598); contains InterPro domain Basic helix-loop-helix dimerisation region bHLH; (InterPro:IPR001092)\\
## Solyc08g016070 & AT4G16340 & mutant has Seedling lethal; Cotyledon, leaf-shape, trichome defects; Putative Cytoskeletal Protein\\
## Solyc08g021810 & NA & NA\\
## Solyc08g022100 & NA & NA\\
## Solyc08g022160 & ATCG01110 & Encodes the 49KDa plastid NAD(P)H dehydrogenase subunit H protein. Its transcription is regulated by an ndhF-specific plastid sigma factor, SIG4.\\
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## Solyc08g023650 & NA & NA\\
## Solyc08g028670 & NA & NA\\
## Solyc08g028890 & NA & NA\\
## Solyc08g029400 & ATCG01280 & Identical to Protein ycf2 (ycf2-B) [Arabidopsis Thaliana] (GB:P56786); similar to hypothetical chloroplast RF2 [Vitis vinifera] (GB:YP_567121.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41290.1); similar to hypothetical chloroplast RF2 [Gossypium hirsutum] (GB:YP_538978.1); contains InterPro domain Chloroplast Ycf2; (InterPro:IPR008543); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc08g036600 & AT3G56900 & aladin-related / adracalin-related; similar to HIRA (ARABIDOPSIS HOMOLOG OF HISTONE CHAPERONE HIRA), nucleotide binding / protein binding [Arabidopsis thaliana] (TAIR:AT3G44530.1); similar to Os11g0132700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065665.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABG22347.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680)\\
## \addlinespace
## Solyc08g045850 & AT5G42310 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G22470.1); similar to CRP1 [Zea mays] (GB:AAC25599.1); similar to Os07g0548300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059927.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc08g048400 & NA & NA\\
## Solyc08g061110 & NA & NA\\
## Solyc08g067420 & NA & NA\\
## Solyc08g067860 & AT2G25660 & EMB2410 (EMBRYO DEFECTIVE 2410); similar to Os01g0179400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042199.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD67835.1); contains domain Pyruvoyl-dependent histidine and arginine decarboxylases (SSF56271)\\
## \addlinespace
## Solyc08g074560 & AT4G31390 & ABC1 family protein; similar to ABC1 family protein [Arabidopsis thaliana] (TAIR:AT1G79600.1); similar to Os11g0216300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067509.1); similar to ABC1 family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA92061.1); similar to Predicted unusual protein kinase (ISS) [Ostreococcus tauri] (GB:CAL50461.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain ABC-1; (InterPro:IPR004147)\\
## Solyc08g075500 & NA & NA\\
## Solyc08g075770 & AT4G19140 & similar to Os04g0600400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053760.1)\\
## Solyc08g077480 & NA & NA\\
## Solyc08g077850 & AT4G17610 & tRNA/rRNA methyltransferase (SpoU) family protein; similar to RNA methyltransferase, TrmH family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF93471.1); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain tRNA/rRNA methyltransferase, SpoU; (InterPro:IPR001537)\\
## \addlinespace
## Solyc08g077960 & AT4G17570 & zinc finger (GATA type) family protein; Identical to GATA transcription factor 28 [Arabidopsis Thaliana] (GB:Q8W4H1;GB:O23598); similar to zinc finger (GATA type) family protein [Arabidopsis thaliana] (TAIR:AT5G47140.1); similar to GATA zinc finger containing protein [Brassica oleracea] (GB:ABD65071.1); contains InterPro domain Zinc finger, GATA-type; (InterPro:IPR000679)\\
## Solyc08g079850 & NA & NA\\
## Solyc08g080040 & AT4G22880 & encodes leucoanthocyanidin dioxygenase, which is involved in proanthocyanin biosynthesis. Mutant analysis suggests that this gene is also involved in vacuole formation.\\
## Solyc08g081100 & NA & NA\\
## Solyc08g082250 & AT1G64390 & endo-1,4-beta-glucanase, putative / cellulase, putative; Identical to Endoglucanase 6 precursor (EC 3.2.1.4) (Endo-1,4-beta glucanase 6) [Arabidopsis Thaliana] (GB:Q42059;GB:Q8H160;GB:Q9C7W3); similar to endo-1,4-beta-glucanase, putative / cellulase, putative [Arabidopsis thaliana] (TAIR:AT4G11050.1); similar to endo-1,4-beta-glucanase, putative / cellulase, putative [Arabidopsis thaliana] (TAIR:AT1G48930.1); similar to glycosyl hydrolase family 9 protein [Arabidopsis thaliana] (TAIR:AT2G32990.1); similar to cellulase [Fragaria x ananassa] (GB:AAC78298.2); similar to endo-beta-1,4-glucanase [Fragaria x ananassa] (GB:CAB43938.1); similar to endo-beta-1,4-glucanase [Fragaria x ananassa] (GB:CAC94006.1); contains InterPro domain Six-hairpin glycosidase; (InterPro:IPR008928); contains InterPro domain Glycoside transferase, six-hairpin, subgroup; (InterPro:IPR012343); contains InterPro domain Glycoside hydrolase, family 9; (InterPro:IPR001701)\\
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## Solyc08g082450 & AT4G10955 & lipase class 3 family protein; similar to lipase class 3 family protein [Arabidopsis thaliana] (TAIR:AT2G05260.1); similar to Os02g0286200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046574.1); similar to lipase class 3-like [Oryza sativa (japonica cultivar-group)] (GB:BAB84413.1); contains InterPro domain Lipase, class 3; (InterPro:IPR002921)\\
## Solyc08g083260 & AT4G24880 & similar to P0402A09.9 [Oryza sativa (japonica cultivar-group)] (GB:BAB62626.1); similar to Os01g0101300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001041742.1); contains domain FAMILY NOT NAMED (PTHR13403); contains domain no description (G3D.2.90.10.10); contains domain SUBFAMILY NOT NAMED (PTHR13403:SF3); contains domain DNA ligase/mRNA capping enzyme, catalytic domain (SSF56091)\\
## Solyc09g005120 & NA & NA\\
## Solyc09g005650 & NA & NA\\
## Solyc09g005660 & NA & NA\\
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## Solyc09g007130 & AT2G46110 & KPHMT1/PANB1 (KETOPANTOATE HYDROXYMETHYLTRANSFERASE 1); 3-methyl-2-oxobutanoate hydroxymethyltransferase; similar to PANB2, 3-methyl-2-oxobutanoate hydroxymethyltransferase [Arabidopsis thaliana] (TAIR:AT3G61530.2); similar to Os01g0225400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042460.1); similar to putative 3-methyl-2-oxobutanoate hydroxymethyltransferase [Oryza sativa (japonica cultivar-group)] (GB:BAB32713.1); contains InterPro domain Ketopantoate hydroxymethyltransferase; (InterPro:IPR003700)\\
## Solyc09g007450 & AT5G03080 & phosphatidic acid phosphatase-related / PAP2-related; similar to PREDICTED: similar to Dolichyldiphosphatase 1 (Dolichyl pyrophosphate phosphatase 1) (Protein 2-23) [Rattus norve (GB:XP_231129.3); similar to Os03g0288700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049787.1); contains InterPro domain Phosphoesterase, PA-phosphatase related; (InterPro:IPR000326); contains InterPro domain Acid phosphatase/vanadium-dependent haloperoxidase; (InterPro:IPR008934)\\
## Solyc09g007800 & NA & NA\\
## Solyc09g007810 & AT4G30080 & Involved in root cap cell differentiation. Gene expression is regulated by mir160.Located in the nucleus.\\
## Solyc09g010050 & AT4G02570 & Encodes a cullin that is a component of SCF ubiquitin ligase complexes involved in mediating responses to auxin and jasmonic acid. Homozygous auxin-resistant mutants arrest growth soon after germination, lacking a root and hypocotyl. Heterozygotes display a variety of phenotypes consistent with impaired auxin response.\\
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## Solyc09g010170 & AT3G11530 & vacuolar protein sorting 55 family protein / VPS55 family protein; similar to vacuolar protein sorting 55 family protein / VPS55 family protein [Arabidopsis thaliana] (TAIR:AT1G32410.5); similar to vacuolar protein sorting 55 family-like [Oryza sativa (japonica cultivar-group)] (GB:BAD88257.1); similar to Os01g0966500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045503.1); contains InterPro domain Vacuolar protein sorting 55; (InterPro:IPR007262)\\
## Solyc09g011470 & NA & NA\\
## Solyc09g018250 & NA & NA\\
## Solyc09g018670 & AT4G10360 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G31300.2); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD53332.1); similar to Os05g0485300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055873.1); similar to Os01g0817100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044622.1); contains InterPro domain TRAM, LAG1 and CLN8 homology; (InterPro:IPR006634); contains InterPro domain Protein of unknown function DUF887, TLC-like; (InterPro:IPR010283)\\
## Solyc09g018760 & AT2G26970 & exonuclease family protein; Identical to Oligoribonuclease (EC 3.1.-.-) [Arabidopsis Thaliana] (GB:Q9ZVE0;GB:Q8VZL2); similar to small fragment nuclease [Danio rerio] (GB:NP_957038.1); similar to PREDICTED: similar to Oligoribonuclease, mitochondrial precursor (Small fragment nuclease) (RNA exonuclease 2 homolog) [Tribolium castaneum] (GB:XP_971552.1); similar to OSJNBa0079M09.9 [Oryza sativa (japonica cultivar-group)] (GB:CAD40497.2); contains InterPro domain Exonuclease; (InterPro:IPR006055); contains InterPro domain Exonuclease, RNase T and DNA polymerase III; (InterPro:IPR013520)\\
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## Solyc09g018890 & NA & NA\\
## Solyc09g047880 & NA & NA\\
## Solyc09g057900 & NA & NA\\
## Solyc09g062980 & NA & NA\\
## Solyc09g065010 & NA & NA\\
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## Solyc09g065100 & NA & NA\\
## Solyc09g066460 & AT2G20470 & kinase; similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT3G23310.1); similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT4G14350.2); similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT1G03920.1); similar to protein kinase MK6 [Mesembryanthemum crystallinum] (GB:CAB82852.1); similar to protein kinase [Nicotiana tabacum] (GB:CAA50374.1); similar to Ser/Thr protein kinase [Lotus japonicus] (GB:BAD95893.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase, C-terminal; (InterPro:IPR000961); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc09g072630 & AT4G28560 & encodes a member of a novel protein family that contains contain a CRIB (for Cdc42/Rac-interactive binding) motif required for their specific interaction with GTP-bound Rop1 (plant-specific Rho GTPase). Most similar to RIC6 and RIC8 (subfamily group II). Gene is expressed in all tissues examined.\\
## Solyc09g074920 & AT4G02485 & oxidoreductase, 2OG-Fe(II) oxygenase family protein; similar to oxidoreductase, 2OG-Fe(II) oxygenase family protein [Arabidopsis thaliana] (TAIR:AT1G31600.3); similar to unnamed protein product [Ostreococcus tauri] (GB:CAL52287.1); similar to Os11g0657200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001068395.1); contains InterPro domain 2OG-Fe(II) oxygenase; (InterPro:IPR005123)\\
## Solyc09g075720 & AT2G39110 & protein kinase, putative; similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT3G09830.2); similar to Os02g0819600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048536.1); similar to protein serine/threonine kinase [Lophopyrum elongatum] (GB:AAF43496.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245)\\
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## Solyc09g082260 & NA & NA\\
## Solyc09g084450 & NA & NA\\
## Solyc09g084470 & NA & NA\\
## Solyc09g089500 & NA & NA\\
## Solyc09g089530 & NA & NA\\
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## Solyc09g090440 & NA & NA\\
## Solyc09g091110 & NA & NA\\
## Solyc09g098420 & NA & NA\\
## Solyc10g006050 & AT3G07810 & heterogeneous nuclear ribonucleoprotein, putative / hnRNP, putative; similar to heterogeneous nuclear ribonucleoprotein, putative / hnRNP, putative [Arabidopsis thaliana] (TAIR:AT5G47620.2); similar to RNA binding [Arabidopsis thaliana] (TAIR:AT4G26650.2); similar to RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain), putative [Medicago truncatula] (GB:ABE88237.1); similar to Os11g0637700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001068335.1); contains InterPro domain Nucleotide-binding, alpha-beta plait; (InterPro:IPR012677); contains InterPro domain RNA-binding region RNP-1 (RNA recognition motif); (InterPro:IPR000504)\\
## Solyc10g007450 & AT1G78710 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G31110.2); similar to Os01g0652100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043736.1); similar to Protein of unknown function DUF231, plant [Medicago truncatula] (GB:ABE82889.1); contains InterPro domain Protein of unknown function DUF231, plant; (InterPro:IPR004253)\\
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## Solyc10g007460 & NA & NA\\
## Solyc10g007710 & AT5G50890 & similar to lipase class 3 family protein [Arabidopsis thaliana] (TAIR:AT2G05260.1); similar to Os01g0243000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042560.1); similar to Os01g0751600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044260.1); similar to lipase class 3-like [Oryza sativa (japonica cultivar-group)] (GB:BAB84413.1)\\
## Solyc10g008480 & AT4G03420 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G03610.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAO39871.1); similar to Os10g0494000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064942.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAP46235.1); contains InterPro domain Protein of unknown function DUF789; (InterPro:IPR008507)\\
## Solyc10g008510 & AT1G03560 & pentatricopeptide (PPR) repeat-containing protein; similar to EMB2745 (EMBRYO DEFECTIVE 2745), binding [Arabidopsis thaliana] (TAIR:AT5G39710.1); similar to putative fertility restorer homologue [Oryza sativa (japonica cultivar-group)] (GB:BAC83297.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc10g008930 & AT1G28480 & glutaredoxin family protein; Identical to Glutaredoxin-C9 (AtGrxC9) (GRXC9) [Arabidopsis Thaliana] (GB:Q9SGP6); similar to glutaredoxin family protein [Arabidopsis thaliana] (TAIR:AT1G03850.2); similar to Os01g0241400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042552.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD81621.1); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Glutaredoxin; (InterPro:IPR002109); contains InterPro domain Thioredoxin fold; (InterPro:IPR012335); contains InterPro domain Glutaredoxin-like, plant II; (InterPro:IPR011905)\\
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## Solyc10g017780 & NA & NA\\
## Solyc10g017900 & NA & NA\\
## Solyc10g019000 & NA & NA\\
## Solyc10g048180 & AT2G42005 & amino acid transporter family protein; similar to amino acid transporter family protein [Arabidopsis thaliana] (TAIR:AT4G38250.1); similar to amino acid transport protein (GB:AAB82307.1); similar to OSIGBa0158F05.8 [Oryza sativa (indica cultivar-group)] (GB:CAH66759.1); similar to OSJNBa0017B10.14 [Oryza sativa (japonica cultivar-group)] (GB:CAE03099.2); contains InterPro domain Amino acid/polyamine transporter II; (InterPro:IPR002422); contains InterPro domain Amino acid transporter, transmembrane; (InterPro:IPR013057)\\
## Solyc10g049360 & NA & NA\\
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## Solyc10g049640 & AT3G19553 & amino acid permease family protein; similar to amino acid permease family protein [Arabidopsis thaliana] (TAIR:AT1G31830.2); similar to putative amino acid permease [Oryza sativa (japonica cultivar-group)] (GB:AAR10855.1); similar to amino acid permease family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97257.1); similar to Os03g0576900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050538.1); contains InterPro domain Amino acid permease-associated region; (InterPro:IPR004841); contains InterPro domain Amino acid/polyamine transporter I; (InterPro:IPR002293)\\
## Solyc10g049760 & NA & NA\\
## Solyc10g052510 & AT4G39230 & encodes a protein whose sequence is similar to phenylcoumaran benzylic ether reductase (PCBER), which catalyzes NADPH-dependent reduction of 8-5' linked lignans such as dehydrodiconiferyl alcohol to give isodihydrodehydrodiconiferyl alcohol.\\
## Solyc10g054480 & AT4G20860 & FAD-binding domain-containing protein; similar to FAD-binding domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G44360.1); similar to FAD-linked oxidoreductase 1 [Glycine max] (GB:ABC41950.1); contains InterPro domain FAD linked oxidase, N-terminal; (InterPro:IPR006094); contains InterPro domain Berberine/berberine-like; (InterPro:IPR012951); contains InterPro domain Oxygen oxidoreductase covalent FAD-binding site; (InterPro:IPR006093)\\
## Solyc10g054730 & NA & NA\\
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## Solyc10g055350 & NA & NA\\
## Solyc10g062220 & AT3G60260 & phagocytosis and cell motility protein ELMO1-related; similar to phagocytosis and cell motility protein ELMO1-related [Arabidopsis thaliana] (TAIR:AT2G44770.1); similar to Os04g0545100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053465.1); similar to Os02g0652300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047599.1); similar to phagocytosis and cell motility protein ELMO1, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA93689.2); contains InterPro domain Engulfment and cell motility, ELM; (InterPro:IPR006816)\\
## Solyc10g075040 & AT3G08760 & Encodes an osmotic stress-inducible kinase that functions as a negative regulator of osmotic stress signaling in plants.\\
## Solyc10g078320 & AT3G56690 & encodes a protein similar to ATPases and binds to calmodulin in vitro. This is a single-copy gene and is expressed in all tissues examined.\\
## Solyc10g080870 & NA & NA\\
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## Solyc10g081330 & NA & NA\\
## Solyc10g083160 & AT5G06260 & nucleolar protein-related; similar to calcium ion binding [Arabidopsis thaliana] (TAIR:AT4G34070.1); similar to PREDICTED: similar to CG5149-PA [Canis familiaris] (GB:XP_546801.2); similar to Os12g0157200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066200.1); contains InterPro domain EF-Hand type; (InterPro:IPR011992); contains InterPro domain Calcium-binding EF-hand; (InterPro:IPR002048); contains InterPro domain TLDc; (InterPro:IPR006571)\\
## Solyc10g084770 & AT5G02290 & Encodes a candidate protein kinase NAK that is similar to the oncogenes met and abl.\\
## Solyc10g084830 & AT5G02180 & amino acid transporter family protein; similar to amino acid transporter family protein [Arabidopsis thaliana] (TAIR:AT3G09330.1); similar to amino acid transporter family protein [Arabidopsis thaliana] (TAIR:AT3G09340.1); similar to amino acid transporter family protein [Arabidopsis thaliana] (TAIR:AT5G02170.1); similar to Os12g0574000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067099.1); similar to Os02g0101000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045585.1); similar to Amino acid/polyamine transporter II [Medicago truncatula] (GB:ABE87832.1); contains InterPro domain Amino acid/polyamine transporter II; (InterPro:IPR002422); contains InterPro domain Amino acid transporter, transmembrane; (InterPro:IPR013057)\\
## Solyc10g085220 & NA & NA\\
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## Solyc11g005440 & NA & NA\\
## Solyc11g005560 & AT5G64740 & Encodes a cellulase synthase. Mutants are defective in hypocotyl elongation dark-grown plants. Normal hypocotyl elongation is restored in plants grown in white, blue or red light.\\
## Solyc11g005970 & AT3G24000 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G23330.1); similar to Selenium binding protein [Brachypodium sylvaticum] (GB:CAJ26357.1); similar to hypothetical protein MtrDRAFT_AC149805g4v1 [Medicago truncatula] (GB:ABE88408.1); similar to pentatricopeptide, putative [Oryza sativa (japonica cultivar-group)] (GB:ABB47711.2); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc11g008790 & AT1G01020 & ARV1; similar to ARV2 [Arabidopsis thaliana] (TAIR:AT4G01510.1); similar to Os03g0784300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051472.1); similar to hypothetical protein [Oryza sativa] (GB:AAK72888.1); contains InterPro domain Proteinase inhibitor, PMP and SGCI; (InterPro:IPR009041); contains InterPro domain Arv1-like protein; (InterPro:IPR007290)\\
## Solyc11g011860 & AT3G14330 & pentatricopeptide (PPR) repeat-containing protein; similar to CRR2 (CHLORORESPIRATORY REDUCTION 2), binding [Arabidopsis thaliana] (TAIR:AT3G46790.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABD33343.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
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## Solyc11g012260 & NA & NA\\
## Solyc11g012880 & AT1G21870 & glucose-6-phosphate/phosphate translocator-related; similar to glucose-6-phosphate/phosphate translocator-related [Arabidopsis thaliana] (TAIR:AT1G77610.1); similar to hypothetical protein DDBDRAFT_0187416 [Dictyostelium discoideum AX4] (GB:XP_637234.1); similar to Os08g0104900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060782.1); similar to Os04g0692000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054364.1); contains InterPro domain Protein of unknown function DUF6, transmembrane; (InterPro:IPR000620); contains InterPro domain Protein of unknown function DUF250; (InterPro:IPR004853)\\
## Solyc11g013790 & NA & NA\\
## Solyc11g017000 & AT1G34320 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G08660.1); similar to Os05g0430300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055623.1); similar to Trp repressor/replication initiator [Medicago truncatula] (GB:ABE83667.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD82727.1); contains InterPro domain Protein of unknown function DUF668; (InterPro:IPR007700)\\
## Solyc11g017250 & AT1G34430 & EMB3003 (EMBRYO DEFECTIVE 3003); dihydrolipoyllysine-residue acetyltransferase; similar to LTA2 (PLASTID E2 SUBUNIT OF PYRUVATE DECARBOXYLASE), dihydrolipoyllysine-residue acetyltransferase [Arabidopsis thaliana] (TAIR:AT3G25860.1); similar to Os12g0182200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066319.1); similar to dihydrolipoamide S-acetyltransferase, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95959.2); contains InterPro domain 2-oxo acid dehydrogenase, lipoyl-binding site; (InterPro:IPR003016); contains InterPro domain Biotin/lipoyl attachment; (InterPro:IPR000089); contains InterPro domain Single hybrid motif; (InterPro:IPR011053); contains InterPro domain E3 binding; (InterPro:IPR004167); contains InterPro domain Catalytic domain of components of various dehydrogenase complexes; (InterPro:IPR001078)\\
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## Solyc11g018770 & NA & NA\\
## Solyc11g018820 & NA & NA\\
## Solyc11g021200 & NA & NA\\
## Solyc11g027650 & NA & NA\\
## Solyc11g027660 & NA & NA\\
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## Solyc11g027670 & NA & NA\\
## Solyc11g027690 & NA & NA\\
## Solyc11g027710 & NA & NA\\
## Solyc11g027750 & NA & NA\\
## Solyc11g027760 & NA & NA\\
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## Solyc11g027770 & NA & NA\\
## Solyc11g027790 & NA & NA\\
## Solyc11g028300 & NA & NA\\
## Solyc11g039970 & NA & NA\\
## Solyc11g044990 & NA & NA\\
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## Solyc11g045150 & ATMG00030 & Identical to Hypothetical mitochondrial protein AtMg00030 (ORF107a) [Arabidopsis Thaliana] (GB:P93276); similar to hypothetical protein NitaMp027 [Nicotiana tabacum] (GB:YP_173374.1)\\
## Solyc11g051180 & NA & NA\\
## Solyc11g051190 & NA & NA\\
## Solyc11g051200 & NA & NA\\
## Solyc11g051210 & NA & NA\\
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## Solyc11g056250 & NA & NA\\
## Solyc11g056330 & AT2G07674 & Identical to Hypothetical mitochondrial protein AtMg01010 (ORF118) [Arabidopsis Thaliana] (GB:P92535;GB:Q8S878;GB:Q8S8C3); similar to hypothetical protein BrnapMp048 [Brassica napus] (GB:YP_717145.1)\\
## Solyc11g056350 & NA & NA\\
## Solyc11g061960 & NA & NA\\
## Solyc11g062050 & ATCG01280 & Identical to Protein ycf2 (ycf2-B) [Arabidopsis Thaliana] (GB:P56786); similar to hypothetical chloroplast RF2 [Vitis vinifera] (GB:YP_567121.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41290.1); similar to hypothetical chloroplast RF2 [Gossypium hirsutum] (GB:YP_538978.1); contains InterPro domain Chloroplast Ycf2; (InterPro:IPR008543); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
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## Solyc11g062320 & AT2G26780 & binding; similar to HEAT repeat family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA95739.2); similar to unnamed protein product [Ostreococcus tauri] (GB:CAL52718.1); similar to HEAT repeat family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA91356.2); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain HEAT; (InterPro:IPR000357)\\
## Solyc11g064950 & AT3G12250 & basic leucine zipper transcription factor involved in the activation of SA-responsive genes.\\
## Solyc11g065930 & AT4G34890 & encodes a xanthine dehydrogenase, involved in purine catabolism. Ubiquitously expressed, but the transcript level is altered during aging, senescence, salt and cold stress, and ABA treatment.\\
## Solyc11g066440 & AT3G44880 & Encodes a pheide a oxygenase (PAO). Accelerated cell death (acd1) mutants show rapid, spreading necrotic responses to both virulent and avirulent Pseudomonas syringae pv. maculicola or pv. tomato pathogens and to ethylene.\\
## Solyc11g066960 & AT2G27760 & Encodes tRNA isopentenyltransferase, similar to yeast MOD5.\\
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## Solyc11g069500 & AT2G28350 & Involved in root cap cell differentiation.\\
## Solyc11g069950 & AT2G26140 & encodes an FtsH protease that is localized to the mitochondrion\\
## Solyc11g071480 & NA & NA\\
## Solyc11g072170 & AT5G19500 & tryptophan/tyrosine permease family protein; similar to tryptophan/tyrosine permease family protein [Arabidopsis thaliana] (TAIR:AT2G33260.1); similar to Tryptophan/tyrosine permease family protein [Solanum demissum] (GB:AAT40501.1); similar to Os07g0662800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060546.1); contains InterPro domain Aromatic amino acid permease; (InterPro:IPR002091); contains InterPro domain Amino acid/polyamine transporter II; (InterPro:IPR002422)\\
## Solyc12g005850 & AT3G21690 & MATE efflux family protein; similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G11670.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G61890.1); similar to MATE efflux family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97209.1); similar to MATE efflux family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97220.1); similar to putative MATE efflux family protein [Oryza sativa (japonica cultivar-group)] (GB:AAS01962.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
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## Solyc12g005990 & AT2G04550 & IBR5 (INDOLE-3-BUTYRIC ACID RESPONSE 5); protein tyrosine/serine/threonine phosphatase; similar to dual specificity protein phosphatase (DsPTP1) [Arabidopsis thaliana] (TAIR:AT3G23610.1); similar to Os06g0308100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057473.1); similar to putative dual specificity phosphatase [Oryza sativa (japonica cultivar-group)] (GB:BAD62187.1); contains InterPro domain Dual specificity protein phosphatase; (InterPro:IPR000340); contains InterPro domain Tyrosine specific protein phosphatase and dual specificity protein phosphatase; (InterPro:IPR000387)\\
## Solyc12g006620 & NA & NA\\
## Solyc12g008790 & AT4G29540 & acyl-[acyl-carrier-protein]-UDP-N-acetylglucosamine O-acyltransferase/ acyltransferase; similar to bacterial transferase hexapeptide repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G05210.1); similar to Os01g0722100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044099.1); similar to UDP-N-acetylglucosamine acyltransferase [Acinetobacter sp. ADP1] (GB:YP_046070.1); contains InterPro domain Acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine O-acyltransferase; (InterPro:IPR010137); contains InterPro domain Bacterial transferase hexapeptide repeat; (InterPro:IPR001451); contains InterPro domain Trimeric LpxA-like; (InterPro:IPR011004)\\
## Solyc12g008890 & AT5G56900 & CwfJ-like family protein / zinc finger (CCCH-type) family protein; similar to CwfJ-like family protein [Arabidopsis thaliana] (TAIR:AT1G56290.1); similar to PREDICTED: hypothetical protein [Strongylocentrotus purpuratus] (GB:XP_783052.1); similar to Os09g0364000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062997.1); contains InterPro domain Protein similar to CwfJ, C-terminal 1; (InterPro:IPR006768); contains InterPro domain Protein similar to CwfJ, C-terminal 2; (InterPro:IPR006767); contains InterPro domain Zinc finger, CCCH-type; (InterPro:IPR000571)\\
## Solyc12g008970 & AT2G19450 & Encodes Acyl-CoA:diacylglycerol acyltransferase (DGAT) catalyzes the final step of the triacylglycerol synthesis pathway. An insertion mutation in the TAG1 gene results in altered lipid phenotype. Role in senescence and seed development.\\
## \addlinespace
## Solyc12g010020 & AT4G30920 & cytosol aminopeptidase family protein; Identical to Leucine aminopeptidase 3, chloroplast precursor (EC 3.4.11.1) (LAP 3) (Leucyl aminopeptidase 3) (Proline aminopeptidase 3) (EC 3.4.11.5) (Prolyl aminopeptidase 3) [Arabidopsis Thaliana] (GB:Q944P7;GB:O65557); similar to cytosol aminopeptidase [Arabidopsis thaliana] (TAIR:AT2G24200.1); similar to cytosol aminopeptidase family protein [Arabidopsis thaliana] (TAIR:AT4G30910.1); similar to Leucine aminopeptidase 2, chloroplast precursor (LAP 2) (Leucyl aminopeptidase 2) (Proline aminopeptidase 2) (Prolyl aminopeptidase 2) (GB:Q42876); similar to neutral leucine aminopeptidase preprotein; preLAP-N; metallo-exopeptidase; leucyl aminopeptidase; LAP [Lycopersicon esculentum] (GB:AAO15916.1); similar to Cytosol aminopeptidase family, catalytic domain, putative [Medicago truncatula] (GB:ABE88725.1); contains InterPro domain Peptidase M17, leucyl aminopeptidase, N-terminal; (InterPro:IPR008283); contains InterPro domain Peptidase M17, leucyl aminopeptidase, C-terminal; (InterPro:IPR000819)\\
## Solyc12g010030 & NA & NA\\
## Solyc12g010870 & AT2G31040 & ATP synthase protein I -related; similar to hypothetical protein MtrDRAFT_AC135231g19v1 [Medicago truncatula] (GB:ABE82903.1)\\
## Solyc12g013660 & NA & NA\\
## Solyc12g033040 & ATCG00350 & Encodes psaA protein comprising the reaction center for photosystem I along with psaB protein; hydrophobic protein encoded by the chloroplast genome.\\
## \addlinespace
## Solyc12g035930 & NA & NA\\
## Solyc12g036420 & NA & NA\\
## Solyc12g036810 & NA & NA\\
## Solyc12g038340 & AT5G38640 & eukaryotic translation initiation factor 2B family protein / eIF-2B family protein; similar to GTP binding / translation initiation factor [Arabidopsis thaliana] (TAIR:AT1G48970.1); similar to Os12g0617100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067287.1); similar to Translation initiation factor eIF-2B delta subunit, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97867.1); contains InterPro domain Initiation factor 2B related; (InterPro:IPR000649)\\
## Solyc12g038550 & NA & NA\\
## \addlinespace
## Solyc12g038630 & NA & NA\\
## Solyc12g042000 & NA & NA\\
## Solyc12g042920 & AT5G40810 & cytochrome c1, putative; similar to cytochrome c1, putative [Arabidopsis thaliana] (TAIR:AT3G27240.1); similar to Cytochrome c, monohaem [Medicago truncatula] (GB:ABE81122.1); contains InterPro domain Cytochrome c, monohaem; (InterPro:IPR009056); contains InterPro domain Cytochrome c region; (InterPro:IPR012282); contains InterPro domain Cytochrome c1; (InterPro:IPR002326)\\
## Solyc12g056230 & AT1G63460 & glutathione peroxidase, putative; Identical to Probable glutathione peroxidase 8 (EC 1.11.1.9) (GPX8) [Arabidopsis Thaliana] (GB:Q8LBU2;GB:Q9SH32); similar to ATGPX6 (GLUTATHIONE PEROXIDASE 6), glutathione peroxidase [Arabidopsis thaliana] (TAIR:AT4G11600.1); similar to Glutathione peroxidase [Medicago truncatula] (GB:ABE92132.1); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Thioredoxin fold; (InterPro:IPR012335); contains InterPro domain Glutathione peroxidase; (InterPro:IPR000889)\\
## Solyc12g056440 & AT4G22990 & SPX (SYG1/Pho81/XPR1) domain-containing protein; similar to SPX (SYG1/Pho81/XPR1) domain-containing protein [Arabidopsis thaliana] (TAIR:AT4G11810.1); similar to SPX (SYG1/Pho81/XPR1) domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G63010.4); similar to Beta-lactamase, class A; SPX, N-terminal; Major facilitator superfamily MFS_1 [Medicago truncatula] (GB:ABD28458.1); similar to SPX (SYG1/Pho81/XPR1) domain-containing protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD44792.1); similar to SPX, N-terminal; Major facilitator superfamily MFS_1 [Medicago truncatula] (GB:ABE83067.1); contains InterPro domain SPX, N-terminal; (InterPro:IPR004331); contains InterPro domain Major facilitator superfamily MFS_1; (InterPro:IPR011701)\\
## \addlinespace
## Solyc12g062600 & ATCG00340 & Encodes the D1 subunit of photosystem I and II reaction centers.\\
## Solyc12g062640 & ATCG00160 & Chloroplast ribosomal protein S2\\
## Solyc12g062650 & NA & NA\\
## Solyc12g070220 & NA & NA\\
## Solyc12g070270 & AT1G70610 & member of TAP subfamily\\
## \addlinespace
## Solyc12g088020 & AT5G63910 & encodes for a farnesylcysteine lyase (EC 1.8.3.5 - prenylcysteine oxidase) involved in a salvage pathway of farnesyl diphosphate.\\
## Solyc12g089010 & AT5G13010 & EMB3011 (EMBRYO DEFECTIVE 3011); RNA helicase; similar to MEE29 (maternal effect embryo arrest 29), ATP-dependent RNA helicase [Arabidopsis thaliana] (TAIR:AT2G35340.1); similar to ATP-dependent RNA helicase, putative [Arabidopsis thaliana] (TAIR:AT3G26560.1); similar to EMB2733/ESP3 (EMBRYO DEFECTIVE 2733), ATP-dependent RNA helicase [Arabidopsis thaliana] (TAIR:AT1G32490.1); similar to DEAH-box RNA helicase [Chlamydomonas reinhardtii] (GB:AAG33228.2); similar to mRNA splicing factor ATP-dependent RNA helicase (ISS) [Ostreococcus tauri] (GB:CAL55058.1); similar to hypothetical protein LOC393850 [Danio rerio] (GB:NP_957170.1); contains InterPro domain Helicase-associated region; (InterPro:IPR007502); contains InterPro domain DEAD/DEAH box helicase; (InterPro:IPR001410); contains InterPro domain Protein of unknown function DUF1605; (InterPro:IPR011709); contains InterPro domain DEAD/DEAH box helicase, N-terminal; (InterPro:IPR011545); contains InterPro domain Helicase, C-terminal; (InterPro:IPR001650)\\
## Solyc12g095890 & AT4G32850 & Encodes a nuclear poly(A) polymerase.\\
## Solyc12g096110 & AT1G31880 & Belongs to five-member BRX gene family. Arabidopsis BRX genes share high levels of similarity among each others, with several conserved domains. The most distinct is BRX domain - highly conserved in all BRX genes among distantly related species. This protein-protein interaction domain is required and sufficient for BRX activity. BRX protein has shown limited functional redundancy with other members of this family.\\
## Solyc12g096340 & AT4G31600 & UDP-glucuronic acid/UDP-N-acetylgalactosamine transporter-related; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G32272.1); similar to Os06g0188100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057020.1); similar to hypothetical protein DDBDRAFT_0202972 [Dictyostelium discoideum AX4] (GB:XP_643057.1); contains InterPro domain Protein of unknown function DUF250; (InterPro:IPR004853)\\
## \addlinespace
## Solyc12g100190 & AT1G15520 & ABC transporter family involved in resistant to lead. Localizes to plasma membrane. Upregulated by lead. Expressed in leaves, flowers. Not expressed in roots.\\
## Solyc12g100270 & AT1G02205 & Expression of the CER1 gene associated with production of stem epicuticular wax and pollen fertility. Biochemical studies showed that cer1 mutants are blocked in the conversion of stem wax C30 aldehydes to C29 alkanes, and they also lack the secondary alcohols and ketones. These suggested the CER1 protein is a aldehyde decarbonylase.\\
## \bottomrule
## \end{tabular}Cluster 31
clusterVis(31)## Using gene as id variables
clusterVis_PCA(31)
clusterVis_line(31)## Using gene, curated as id variables
#clusterGO(31)
y <- genesInClust(31, data.val2, annotation) ## [1] 301kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g005840 & NA & NA\\
## Solyc00g006840 & NA & NA\\
## Solyc00g164680 & NA & NA\\
## Solyc01g005610 & AT1G09390 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT1G56670.1); similar to Os01g0329900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042924.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAT85172.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc01g005940 & AT5G17230 & Encodes phytoene synthase.\\
## \addlinespace
## Solyc01g006400 & NA & NA\\
## Solyc01g006670 & NA & NA\\
## Solyc01g006990 & NA & NA\\
## Solyc01g007080 & NA & NA\\
## Solyc01g007230 & NA & NA\\
## \addlinespace
## Solyc01g007250 & AT1G63780 & Small nucleolar ribonucleoprotein protein involved in ribosomal RNA processing. Located in nucleolus and cajal bodies.\\
## Solyc01g007510 & NA & NA\\
## Solyc01g009670 & AT5G23690 & polynucleotide adenylyltransferase family protein; similar to polynucleotide adenylyltransferase family protein / RNA recognition motif (RRM)-containing protein [Arabidopsis thaliana] (TAIR:AT3G48830.1); similar to Os03g0131400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048863.1); similar to Putative poly(A) polymerase [Oryza sativa (japonica cultivar-group)] (GB:AAM22707.1); similar to Os04g0395900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052662.1); contains InterPro domain Nucleotidyltransferase/Poly(A) polymerase; (InterPro:IPR012277); contains InterPro domain Polynucleotide adenylyltransferase region; (InterPro:IPR002646)\\
## Solyc01g009860 & NA & NA\\
## Solyc01g010590 & AT1G26940 & peptidyl-prolyl cis-trans isomerase cyclophilin-type family protein; similar to peptidyl-prolyl cis-trans isomerase cyclophilin-type family protein [Arabidopsis thaliana] (TAIR:AT3G44600.1); similar to 51434 (GB:AAD14500.1); contains InterPro domain Peptidyl-prolyl cis-trans isomerase, cyclophilin type; (InterPro:IPR002130)\\
## \addlinespace
## Solyc01g014230 & AT2G23140 & armadillo/beta-catenin repeat family protein / U-box domain-containing protein; similar to armadillo/beta-catenin repeat family protein / U-box domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G54790.1); similar to Os08g0110500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060820.1); similar to arm repeat-containing protein [Nicotiana tabacum] (GB:AAO61490.1); contains InterPro domain Armadillo; (InterPro:IPR000225); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain U box; (InterPro:IPR003613)\\
## Solyc01g014280 & NA & NA\\
## Solyc01g014290 & NA & NA\\
## Solyc01g049770 & NA & NA\\
## Solyc01g056340 & AT4G10180 & Encodes a nuclear-localized protein that acts as a repressor of photomorphogenesis and may be involved in chromatin remodeling.\\
## \addlinespace
## Solyc01g058670 & NA & NA\\
## Solyc01g058730 & AT4G16180 & similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABF95572.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABF95573.1); contains domain N-terminal nucleophile aminohydrolases (Ntn hydrolases) (SSF56235)\\
## Solyc01g065530 & AT4G16120 & putative membrane-anchored cell wall protein\\
## Solyc01g065600 & ATCG01050 & Represents a plastid-encoded subunit of a NAD(P)H dehydrogenase complex. Its mRNA is edited at four positions. Translation data is not available for this gene.\\
## Solyc01g065610 & ATCG01050 & Represents a plastid-encoded subunit of a NAD(P)H dehydrogenase complex. Its mRNA is edited at four positions. Translation data is not available for this gene.\\
## \addlinespace
## Solyc01g065620 & ATCG01050 & Represents a plastid-encoded subunit of a NAD(P)H dehydrogenase complex. Its mRNA is edited at four positions. Translation data is not available for this gene.\\
## Solyc01g065630 & NA & NA\\
## Solyc01g066520 & AT3G06850 & dihydrolipoamide branched chain acyltransferase\\
## Solyc01g068450 & NA & NA\\
## Solyc01g073940 & NA & NA\\
## \addlinespace
## Solyc01g079830 & NA & NA\\
## Solyc01g081410 & AT5G45275 & similar to nodulin-related [Arabidopsis thaliana] (TAIR:AT4G19450.1); similar to NFD4 (NUCLEAR FUSION DEFECTIVE 4) [Arabidopsis thaliana] (TAIR:AT1G31470.1); similar to Nodulin-like; Major facilitator superfamily MFS_1 [Medicago truncatula] (GB:ABE77921.1); similar to Os11g0107400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065544.1); similar to Os12g0106500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065940.1); contains InterPro domain Nodulin-like; (InterPro:IPR010658)\\
## Solyc01g081460 & AT5G17660 & methyltransferase; similar to methyltransferase [Arabidopsis thaliana] (TAIR:AT5G24840.1); similar to tRNA (guanine-N(7)-)-methyltransferase-like protein [Oryza sativa (japonica cultivar-group)] (GB:BAD87719.1); similar to Os01g0535900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043258.1); contains InterPro domain Putative methyltransferase; (InterPro:IPR003358); contains InterPro domain Conserved hypothetical protein 91; (InterPro:IPR004395); contains InterPro domain SAM (and some other nucleotide) binding motif; (InterPro:IPR000051)\\
## Solyc01g087680 & NA & NA\\
## Solyc01g087740 & NA & NA\\
## \addlinespace
## Solyc01g091490 & NA & NA\\
## Solyc01g091510 & NA & NA\\
## Solyc01g091700 & AT3G61060 & ATPP2-A13; similar to ATPP2-A12 (Phloem protein 2-A12) [Arabidopsis thaliana] (TAIR:AT1G12710.1); similar to Cyclin-like F-box; Galactose-binding like [Medicago truncatula] (GB:ABE86301.1); contains InterPro domain Cyclin-like F-box; (InterPro:IPR001810)\\
## Solyc01g094490 & NA & NA\\
## Solyc01g096200 & NA & NA\\
## \addlinespace
## Solyc01g097150 & NA & NA\\
## Solyc01g097270 & AT3G04720 & Encodes a protein similar to the antifungal chitin-binding protein hevein from rubber tree latex. mRNA levels increase in response to ethylene and turnip crinkle virus infection.\\
## Solyc01g097520 & AT2G38750 & Annexins are a family of calcium dependent membrane binding proteins though to be involved in Golgi mediated secretion. This is one of four annexins identified in Arabidopsis.\\
## Solyc01g098830 & NA & NA\\
## Solyc01g100160 & NA & NA\\
## \addlinespace
## Solyc01g102340 & NA & NA\\
## Solyc01g102940 & AT5G49810 & Arabidopsis thaliana methionine S-methyltransferase, an enzyme that catalyzes S -methylmethionine formation.\\
## Solyc01g104200 & NA & NA\\
## Solyc01g105230 & AT5G64220 & calmodulin binding; Identical to Calmodulin-binding transcription activator 2 (Signal-responsive protein 4) (Ethylene-induced calmodulin-binding protein c) (EICBP.c) (AtER66) (CMTA2) [Arabidopsis Thaliana] (GB:Q6NPP4;GB:Q9FMG3); similar to ethylene-responsive calmodulin-binding protein, putative (SR1) [Arabidopsis thaliana] (TAIR:AT2G22300.1); similar to EICBP.B (ETHYLENE INDUCED CALMODULIN BINDING PROTEIN), calmodulin binding / transcription regulator [Arabidopsis thaliana] (TAIR:AT5G09410.1); similar to anther ethylene-upregulated protein ER1, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF94398.1); similar to calmodulin-binding transcription activator [Brassica napus] (GB:AAM10969.1); similar to Putative calmodulin-binding protein similar to ER66 [Oryza sativa] (GB:AAM08530.1); contains InterPro domain Ankyrin; (InterPro:IPR002110); contains InterPro domain IQ calmodulin-binding region; (InterPro:IPR000048)\\
## Solyc01g105330 & NA & NA\\
## \addlinespace
## Solyc01g105890 & NA & NA\\
## Solyc01g106580 & AT5G65810 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G49720.2); similar to Os01g0144000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042001.1); similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE78370.1); contains domain S-adenosyl-L-methionine-dependent methyltransferases (SSF53335)\\
## Solyc01g108300 & NA & NA\\
## Solyc01g109650 & AT2G16250 & leucine-rich repeat transmembrane protein kinase, putative; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT4G39270.1); similar to Os03g0724300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051121.1); similar to Os07g0134600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058843.1); similar to putative receptor-like protein kinase [Oryza sativa (japonica cultivar-group)] (GB:AAP68881.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, typical subtype; (InterPro:IPR003591); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090)\\
## Solyc01g109930 & AT4G39120 & inositol monophosphatase family protein; similar to VTC4, 3'(2'),5'-bisphosphate nucleotidase/ inositol or phosphatidylinositol phosphatase [Arabidopsis thaliana] (TAIR:AT3G02870.1); similar to Inositol monophosphatase; Histidinol-phosphate phosphatase, putative, inositol monophosphatase [Medicago truncatula] (GB:ABE79654.1); contains InterPro domain Histidinol-phosphate phosphatase, putative, inositol monophosphatase; (InterPro:IPR011809); contains InterPro domain Inositol monophosphatase; (InterPro:IPR000760)\\
## \addlinespace
## Solyc01g111010 & NA & NA\\
## Solyc01g111860 & NA & NA\\
## Solyc01g112000 & AT3G45970 & member of EXPANSIN-LIKE. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio)\\
## Solyc02g011750 & NA & NA\\
## Solyc02g014430 & AT4G05120 & Encodes an equilibrative nucleoside transporter AtENT3. Mutations of this locus allow mutants to grow on uridine analogue fluorouridine.\\
## \addlinespace
## Solyc02g027080 & NA & NA\\
## Solyc02g036290 & AT4G04320 & malonyl-CoA decarboxylase family protein; similar to Os09g0394100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063091.1); similar to unnamed protein product [Tetraodon nigroviridis] (GB:CAF98885.1); contains InterPro domain Malonyl-CoA decarboxylase; (InterPro:IPR007956)\\
## Solyc02g064640 & AT3G49870 & A member of ARF-like GTPase family. A thaliana has 21 members, in two subfamilies, ARF and ARF-like (ARL) GTPases.\\
## Solyc02g065720 & AT5G38895 & zinc finger (C3HC4-type RING finger) family protein; similar to zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] (TAIR:AT3G02290.1); similar to hypothetical protein [Cleome spinosa] (GB:ABD96894.1); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc02g065780 & NA & NA\\
## \addlinespace
## Solyc02g070680 & AT4G18260 & cytochrome B561-related; similar to membrane protein, putative [Arabidopsis thaliana] (TAIR:AT2G30890.1); similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE90100.1); contains InterPro domain Cytochrome b561 / ferric reductase transmembrane; (InterPro:IPR006593)\\
## Solyc02g071930 & NA & NA\\
## Solyc02g074600 & NA & NA\\
## Solyc02g076780 & NA & NA\\
## Solyc02g077930 & NA & NA\\
## \addlinespace
## Solyc02g079390 & AT1G11380 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G05350.1); similar to Uncharacterized Cys-rich domain [Medicago truncatula] (GB:ABD32347.1); contains InterPro domain Protein of unknown function Cys-rich; (InterPro:IPR006461)\\
## Solyc02g079510 & NA & NA\\
## Solyc02g081770 & NA & NA\\
## Solyc02g083720 & AT1G11000 & A member of a large family of seven-transmembrane domain proteins specific to plants, homologs of the barley mildew resistance locus o (MLO) protein. The Arabidopsis genome contains 15 genes encoding MLO proteins, with localization in plasma membrane. Phylogenetic analysis revealed four clades of closely-related AtMLO genes. ATMLO4 belongs to the clade I, with AtMLO11 and AtMLO14. The gene is expressed during early seedling growth, in roots and lateral root primordia, in flower and fruit abscission zone, in vascular system of root, cotyledons and young leaves, it was not expressed in mature rosette leaves, as shown by GUS activity patterns. The expression of several phylogenetically closely-related AtMLO genes showed similar or overlapping tissue specificity and analogous responsiveness to external stimuli, suggesting functional redundancy, co-function, or antagonistic function(s).\\
## Solyc02g084130 & NA & NA\\
## \addlinespace
## Solyc02g084650 & NA & NA\\
## Solyc02g084700 & AT4G36280 & ATP-binding region, ATPase-like domain-containing protein; similar to ATP-binding region, ATPase-like domain-containing protein [Arabidopsis thaliana] (TAIR:AT4G36270.1); similar to ATP-binding region, ATPase-like domain-containing protein [Arabidopsis thaliana] (TAIR:AT4G36290.1); similar to Os10g0181700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064253.1); similar to Unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAK70637.1); contains InterPro domain ATP-binding region, ATPase-like; (InterPro:IPR003594)\\
## Solyc02g085990 & NA & NA\\
## Solyc02g086460 & NA & NA\\
## Solyc02g088630 & AT3G01040 & Encodes a protein with putative galacturonosyltransferase activity.\\
## \addlinespace
## Solyc02g090930 & NA & NA\\
## Solyc02g091910 & NA & NA\\
## Solyc02g091920 & AT4G37800 & xyloglucan:xyloglucosyl transferase, putative / xyloglucan endotransglycosylase, putative / endo-xyloglucan transferase, putative; Identical to Probable xyloglucan endotransglucosylase/hydrolase protein 7 precursor (EC 2.4.1.207) (At-XTH7) (XTH-7) (XTH7) [Arabidopsis Thaliana] (GB:Q8LER3;GB:Q9T067); similar to xyloglucan:xyloglucosyl transferase, putative / xyloglucan endotransglycosylase, putative / endo-xyloglucan transferase, putative [Arabidopsis thaliana] (TAIR:AT5G65730.1); similar to endo-xyloglucan transferase [Gossypium hirsutum] (GB:BAA21107.1); contains InterPro domain Beta-glucanase; (InterPro:IPR008264); contains InterPro domain Glycoside hydrolase, family 16, active site; (InterPro:IPR008263); contains InterPro domain Concanavalin A-like lectin/glucanase, subgroup; (InterPro:IPR013320); contains InterPro domain Concanavalin A-like lectin/glucanase; (InterPro:IPR008985); contains InterPro domain Glycoside hydrolase, family 16; (InterPro:IPR000757); contains InterPro domain Xyloglucan endo-transglycosylase, C-terminal; (InterPro:IPR010713)\\
## Solyc02g092920 & AT4G37270 & Encodes a P1B-type ATPases that is localized to the chloroplast envelope and is involved in the transport of Cu into chloroplasts. It is essential for growth under high light conditions.\\
## Solyc02g093070 & AT3G50210 & 2-oxoacid-dependent oxidase, putative; similar to DIN11 (DARK INDUCIBLE 11), oxidoreductase [Arabidopsis thaliana] (TAIR:AT3G49620.1); similar to 2-oxoacid-dependent oxidase, putative [Arabidopsis thaliana] (TAIR:AT3G49630.1); similar to putative flavonol synthase-like protein [Euphorbia esula] (GB:AAF34802.1); contains InterPro domain 2OG-Fe(II) oxygenase; (InterPro:IPR005123)\\
## \addlinespace
## Solyc02g094260 & NA & NA\\
## Solyc03g005910 & NA & NA\\
## Solyc03g007520 & AT5G53330 & similar to Os06g0160400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056879.1); contains InterPro domain UBA-like; (InterPro:IPR009060); contains InterPro domain Ubiquitin-associated; (InterPro:IPR000449)\\
## Solyc03g020030 & NA & NA\\
## Solyc03g020040 & NA & NA\\
## \addlinespace
## Solyc03g020090 & ATCG01280 & Identical to Protein ycf2 (ycf2-B) [Arabidopsis Thaliana] (GB:P56786); similar to hypothetical chloroplast RF2 [Vitis vinifera] (GB:YP_567121.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41290.1); similar to hypothetical chloroplast RF2 [Gossypium hirsutum] (GB:YP_538978.1); contains InterPro domain Chloroplast Ycf2; (InterPro:IPR008543); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc03g025590 & AT4G20850 & Tripeptidyl Peptidase II. Ser protease that assembles into a large oligomeric complex containing two proteins of 153 and 142 kD that are derived from a single TPP2 gene, with the smaller version missing part of the C-terminal end. Not essential, based on the lack of phenotype of a T-DNA disruption mutant.\\
## Solyc03g025620 & AT4G20850 & Tripeptidyl Peptidase II. Ser protease that assembles into a large oligomeric complex containing two proteins of 153 and 142 kD that are derived from a single TPP2 gene, with the smaller version missing part of the C-terminal end. Not essential, based on the lack of phenotype of a T-DNA disruption mutant.\\
## Solyc03g026080 & AT1G63120 & AtRBL2 has been identified as a rhomboid protein involved in regulated intramembrane proteolysis (RIP). The enzyme has the proteolytic activity and substrate specificity comparable to the Drosophila Rho-1 protein.\\
## Solyc03g031980 & NA & NA\\
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## Solyc03g044100 & AT4G37530 & peroxidase, putative; Identical to Peroxidase 51 precursor (EC 1.11.1.7) (Atperox P51) (ATP37) (PER51) [Arabidopsis Thaliana] (GB:Q9SZE7;GB:Q8VYK8); similar to peroxidase 50 (PER50) (P50) (PRXR2) [Arabidopsis thaliana] (TAIR:AT4G37520.1); similar to peroxidase 1 [Artemisia annua] (GB:AAO45182.1); contains InterPro domain Haem peroxidase; (InterPro:IPR010255); contains InterPro domain Haem peroxidase, plant/fungal/bacterial; (InterPro:IPR002016); contains InterPro domain Plant peroxidase; (InterPro:IPR000823)\\
## Solyc03g046580 & NA & NA\\
## Solyc03g058930 & AT5G62740 & band 7 family protein; similar to band 7 family protein [Arabidopsis thaliana] (TAIR:AT1G69840.6); similar to hypersensitive-induced reaction protein [Capsicum annuum] (GB:AAS98165.1); contains InterPro domain Band 7 protein; (InterPro:IPR001107)\\
## Solyc03g062700 & AT1G54385 & binding; similar to binding [Arabidopsis thaliana] (TAIR:AT3G03970.2); similar to Os12g0624800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067317.1); similar to Os11g0580000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001068152.1); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989)\\
## Solyc03g063650 & NA & NA\\
## \addlinespace
## Solyc03g078490 & AT1G22340 & UDP-glucoronosyl/UDP-glucosyl transferase family protein; similar to UDP-glucoronosyl/UDP-glucosyl transferase family protein [Arabidopsis thaliana] (TAIR:AT1G22360.1); similar to transcription factor/ transferase, transferring glycosyl groups [Arabidopsis thaliana] (TAIR:AT1G22380.1); similar to UGT85A1 (UDP-glucosyl transferase 85A1), UDP-glycosyltransferase/ transferase, transferring glycosyl groups / transferase, transferring hexosyl groups [Arabidopsis thaliana] (TAIR:AT1G22400.1); similar to glycosyltransferase NTGT5b [Nicotiana tabacum] (GB:BAD93690.1); contains InterPro domain UDP-glucuronosyl/UDP-glucosyltransferase; (InterPro:IPR002213)\\
## Solyc03g078520 & AT5G10290 & leucine-rich repeat family protein / protein kinase family protein; similar to leucine-rich repeat family protein / protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G65240.1); similar to 4D11_24 [Brassica rapa subsp. pekinensis] (GB:AAZ67538.1); similar to putative receptor-like kinase (with alternative splicing) [Oryza sativa (japonica cultivar-group)] (GB:AAS07247.1); similar to BRASSINOSTEROID INSENSITIVE 1-associated receptor kinase 1 precursor, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF98429.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, typical subtype; (InterPro:IPR003591); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc03g079870 & NA & NA\\
## Solyc03g095980 & NA & NA\\
## Solyc03g096460 & NA & NA\\
## \addlinespace
## Solyc03g098100 & AT1G59960 & aldo/keto reductase, putative; similar to aldo/keto reductase, putative [Arabidopsis thaliana] (TAIR:AT1G59950.1); similar to reductase 2 [Hydrangea macrophylla] (GB:AAR89808.1); contains InterPro domain Aldo/keto reductase; (InterPro:IPR001395)\\
## Solyc03g111180 & AT5G60160 & aspartyl aminopeptidase, putative; similar to aspartyl aminopeptidase, putative [Arabidopsis thaliana] (TAIR:AT5G04710.1); similar to Peptidase M18, aminopeptidase I [Medicago truncatula] (GB:ABE80427.1); similar to Os01g0967900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045513.1); similar to Os12g0236500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066463.1); contains InterPro domain Peptidase M18, aminopeptidase I; (InterPro:IPR001948)\\
## Solyc03g112160 & NA & NA\\
## Solyc03g114530 & NA & NA\\
## Solyc03g114560 & NA & NA\\
## \addlinespace
## Solyc03g119160 & NA & NA\\
## Solyc03g123560 & NA & NA\\
## Solyc04g008230 & AT1G48100 & glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein; similar to glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein [Arabidopsis thaliana] (TAIR:AT1G02460.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAS98503.1); similar to Os05g0279900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055086.1); contains InterPro domain Virulence factor, pectin lyase fold; (InterPro:IPR011050); contains InterPro domain Glycoside hydrolase, family 28; (InterPro:IPR000743); contains InterPro domain Pectolytic enzyme, Pectin lyase fold; (InterPro:IPR012334); contains InterPro domain Parallel beta-helix repeat; (InterPro:IPR006626)\\
## Solyc04g008710 & NA & NA\\
## Solyc04g009290 & NA & NA\\
## \addlinespace
## Solyc04g009950 & AT1G09770 & member of MYB3R- and R2R3- type MYB- encoding genes\\
## Solyc04g014260 & AT4G24660 & ATHB22/MEE68 (ARABIDOPSIS THALIANA HOMEOBOX PROTEIN 22, maternal effect embryo arrest 68); DNA binding / transcription factor; Identical to ZF-HD homeobox protein At4g24660 (AtHB-22) [Arabidopsis Thaliana] (GB:Q9SB61); similar to ATHB25/ZFHD2 (ZINC FINGER HOMEODOMAIN 2), DNA binding / transcription factor [Arabidopsis thaliana] (TAIR:AT5G65410.1); similar to ZF-HD homeobox protein [Flaveria bidentis] (GB:CAC34447.1); contains InterPro domain Homeobox domain, ZF-HD class; (InterPro:IPR006455); contains InterPro domain Homeodomain-like; (InterPro:IPR009057); contains InterPro domain ZF-HD homeobox protein Cys/His-rich dimerisation region; (InterPro:IPR006456)\\
## Solyc04g040000 & NA & NA\\
## Solyc04g050020 & NA & NA\\
## Solyc04g056320 & NA & NA\\
## \addlinespace
## Solyc04g056640 & AT1G65380 & Receptor-like protein containing leucine-rich repeats. Regulates both meristem and organ development in Arabidopsis.\\
## Solyc04g058010 & NA & NA\\
## Solyc04g071890 & AT1G71695 & peroxidase 12 (PER12) (P12) (PRXR6); Identical to Peroxidase 12 precursor (EC 1.11.1.7) (Atperox P12) (PRXR6) (ATP4a) (PER12) [Arabidopsis Thaliana] (GB:Q96520;GB:Q43734); similar to peroxidase, putative [Arabidopsis thaliana] (TAIR:AT4G08770.1); similar to peroxidase [Nicotiana tabacum] (GB:AAK52084.1); contains InterPro domain Haem peroxidase; (InterPro:IPR010255); contains InterPro domain Haem peroxidase, plant/fungal/bacterial; (InterPro:IPR002016); contains InterPro domain Plant peroxidase; (InterPro:IPR000823)\\
## Solyc04g072530 & NA & NA\\
## Solyc04g074040 & NA & NA\\
## \addlinespace
## Solyc04g074380 & AT1G22380 & transcription factor/ transferase, transferring glycosyl groups; similar to UDP-glucoronosyl/UDP-glucosyl transferase family protein [Arabidopsis thaliana] (TAIR:AT1G22360.1); similar to UDP-glucoronosyl/UDP-glucosyl transferase family protein [Arabidopsis thaliana] (TAIR:AT1G22340.1); similar to UGT85A1 (UDP-glucosyl transferase 85A1), UDP-glycosyltransferase/ transferase, transferring glycosyl groups / transferase, transferring hexosyl groups [Arabidopsis thaliana] (TAIR:AT1G22400.1); similar to glycosyltransferase NTGT5b [Nicotiana tabacum] (GB:BAD93690.1); similar to glycosyltransferase NTGT5a [Nicotiana tabacum] (GB:BAD93689.1); contains InterPro domain UDP-glucuronosyl/UDP-glucosyltransferase; (InterPro:IPR002213)\\
## Solyc04g074390 & AT1G22360 & UDP-glucoronosyl/UDP-glucosyl transferase family protein; similar to UDP-glucoronosyl/UDP-glucosyl transferase family protein [Arabidopsis thaliana] (TAIR:AT1G22340.1); similar to transcription factor/ transferase, transferring glycosyl groups [Arabidopsis thaliana] (TAIR:AT1G22380.1); similar to UGT85A1 (UDP-glucosyl transferase 85A1), UDP-glycosyltransferase/ transferase, transferring glycosyl groups / transferase, transferring hexosyl groups [Arabidopsis thaliana] (TAIR:AT1G22400.1); similar to glycosyltransferase NTGT5b [Nicotiana tabacum] (GB:BAD93690.1); similar to glycosyltransferase NTGT5a [Nicotiana tabacum] (GB:BAD93689.1); contains InterPro domain UDP-glucuronosyl/UDP-glucosyltransferase; (InterPro:IPR002213)\\
## Solyc04g076820 & NA & NA\\
## Solyc04g077620 & NA & NA\\
## Solyc04g080670 & AT5G42810 & Encodes an inositol tetra-/pentaphosphate 2-kinase, involved in the biosynthesis of phytic acid, a regulator of intracellular signaling, a highly abundant animal antinutrient, and a phosphate and mineral storage compound in plant seeds.\\
## \addlinespace
## Solyc04g081170 & AT5G42520 & ATBPC6/BBR/BPC6/BPC6 (BASIC PENTACYSTEINE 6); DNA binding / transcription factor; similar to ATBPC4/BBR/BPC4/BPC4 (BASIC PENTACYSTEINE 4) [Arabidopsis thaliana] (TAIR:AT2G21240.2); similar to GAGA-binding transcriptional activator [Cardamine pratensis] (GB:ABG57061.1); contains InterPro domain GAGA binding-like; (InterPro:IPR010409)\\
## Solyc04g082270 & NA & NA\\
## Solyc04g082540 & NA & NA\\
## Solyc04g082970 & NA & NA\\
## Solyc05g009060 & NA & NA\\
## \addlinespace
## Solyc05g010140 & NA & NA\\
## Solyc05g012490 & NA & NA\\
## Solyc05g012580 & NA & NA\\
## Solyc05g024380 & NA & NA\\
## Solyc05g040040 & AT5G48170 & encodes an F-box protein whose protein sequence is similar to SLY1, which belongs to SCF-SLY1 E3 ligase complex. SCF-SLY1 E3 ligase degrades DELLA proteins that are involved in promoting growth. Overexpression of SLY2 can partially compensate sly1-10 mutant phenotype of dwarfism.\\
## \addlinespace
## Solyc05g043200 & NA & NA\\
## Solyc05g043410 & NA & NA\\
## Solyc05g051250 & AT5G37600 & encodes a cytosolic glutamine synthetase, the enzyme has high affinity with substrate ammonium\\
## Solyc05g051640 & AT5G61480 & leucine-rich repeat transmembrane protein kinase, putative; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT4G28650.1); similar to CLAVATA1 receptor kinase (CLV1) [Arabidopsis thaliana] (TAIR:AT1G08590.1); similar to BAM1 (big apical meristem 1), ATP binding / kinase/ protein serine/threonine kinase [Arabidopsis thaliana] (TAIR:AT5G65700.1); similar to putative receptor-like protein kinase 1 [Oryza sativa (japonica cultivar-group)] (GB:AAP68887.1); similar to Protein kinase; Actin-binding, actinin-type [Medicago truncatula] (GB:ABE92015.1); similar to Hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAO17351.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc05g053320 & NA & NA\\
## \addlinespace
## Solyc05g053550 & AT5G13930 & Encodes chalcone synthase (CHS), a key enzyme involved in the biosynthesis of flavonoids. Required for the accumulation of purple anthocyanins in leaves and stems. Also involved in the regulation of auxin transport and the modulation of root gravitropism.\\
## Solyc05g054520 & AT2G39550 & encodes the beta subunit of geranylgeranyl transferase (GGT-IB), involved in both ABA-mediated and auxin signaling pathways.\\
## Solyc05g055400 & AT5G04660 & encodes a protein with cytochrome P450 domain\\
## Solyc06g007830 & NA & NA\\
## Solyc06g009500 & NA & NA\\
## \addlinespace
## Solyc06g019200 & AT5G05740 & S2P-like putative metalloprotease, also contain transmembrane helices near their C-termini and many of them, five of seven, contain a conserved zinc-binding motif HEXXH. Homolog of EGY1. Each of the EGY1 and EGY-like proteins share two additional highly conserved motifs, the previously reported NPDG motif (aa 442–454 in EGY1, Rudner et al., 1999) and a newly defined GNLR motif (aa 171–179 in EGY1). The GNLR motif is a novel signature motif unique to EGY1 and EGY-like proteins as well as other EGY1 orthologs found in cyanobacteria.\\
## Solyc06g030500 & NA & NA\\
## Solyc06g048890 & AT2G40730 & HEAT repeat-containing protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT1G71410.1); similar to putative kinase-like protein splice variant 1 [Oryza sativa (japonica cultivar-group)] (GB:BAD73565.1); similar to Os01g0819900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044644.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain HEAT; (InterPro:IPR000357)\\
## Solyc06g051900 & AT5G41480 & Encodes protein similar to dihydrofolate synthetase and folylpolyglutamate synthetase, both of which are involved in folate biosynthesis.\\
## Solyc06g053220 & NA & NA\\
## \addlinespace
## Solyc06g053540 & NA & NA\\
## Solyc06g053670 & AT4G14430 & enoyl-CoA hydratase/isomerase family protein; similar to enoyl-CoA hydratase/isomerase family protein [Arabidopsis thaliana] (TAIR:AT4G14440.1); similar to Enoyl-CoA hydratase/isomerase [Medicago truncatula] (GB:ABD28677.1); contains InterPro domain Enoyl-CoA hydratase/isomerase; (InterPro:IPR001753)\\
## Solyc06g054410 & AT3G02875 & Hydrolyzes amino acid conjugates of the plant growth regulator indole-3-acetic acid (IAA), including IAA-Leu and IAA-Phe. Uses Mg and Co ions as cofactors.\\
## Solyc06g060350 & NA & NA\\
## Solyc06g060680 & NA & NA\\
## \addlinespace
## Solyc06g060760 & AT5G47450 & Tonoplast intrinsic protein, transports ammonium (NH3) and methylammonium across the tonoplast membrane, gene expression shows diurnal regulation and is upregulated by ammonium (NH3).\\
## Solyc06g060990 & AT5G47090 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G03710.1); similar to hypothetical protein 26.t00106 [Brassica oleracea] (GB:ABD65045.1)\\
## Solyc06g061250 & NA & NA\\
## Solyc06g062430 & AT1G14520 & Encodes MIOX1. Belongs to myo-inositol oxygenase gene family.\\
## Solyc06g064500 & NA & NA\\
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## Solyc06g065100 & AT4G38620 & Encodes a R2R3 MYB protein which is involved in the response to UV-B. It functions as a repressor of target gene expression. One of its target genes encodes cinnamate 4-hydroxylase; mutants accumulate sinapate esters in their leaves.\\
## Solyc06g065550 & NA & NA\\
## Solyc06g066050 & AT5G25360 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G15350.1); similar to hypothetical protein [Glycine max] (GB:AAN03467.1)\\
## Solyc06g066210 & NA & NA\\
## Solyc06g066580 & NA & NA\\
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## Solyc06g066640 & AT3G16140 & Encodes subunit H of photosystem I reaction center subunit VI.\\
## Solyc06g068310 & AT1G80520 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G15760.1); similar to Jp18 [Poncirus trifoliata] (GB:AAN62342.1); contains InterPro domain Sterile alpha motif homology; (InterPro:IPR010993)\\
## Solyc06g068360 & AT5G25190 & encodes a member of the ERF (ethylene response factor) subfamily B-6 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 12 members in this subfamily including RAP2.11.\\
## Solyc06g074630 & AT5G22740 & encodes a beta-mannan synthase based on in vitro enzyme assays from heterologously expressed protein\\
## Solyc06g076820 & AT2G29660 & zinc finger (C2H2 type) family protein; similar to zinc finger (C2H2 type) family protein [Arabidopsis thaliana] (TAIR:AT1G75710.1); similar to H0814G11.16 [Oryza sativa (indica cultivar-group)] (GB:CAJ86349.1); similar to CAA30374.1 protein [Oryza sativa] (GB:CAB53477.1); similar to Os03g0264600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049642.1); contains InterPro domain Zinc finger, C2H2-type; (InterPro:IPR007087)\\
## \addlinespace
## Solyc06g082380 & NA & NA\\
## Solyc06g082970 & NA & NA\\
## Solyc06g083890 & AT1G65660 & Encodes a CCHC zinc finger protein that may function as a step II splicing factor. In an epigenetic allele of SMP1 (in which SMP1 and SMP2 mRNA is reduced) organs are smaller and contain fewer cells.\\
## Solyc06g084060 & AT3G54650 & F-box family protein (FBL17); similar to F-box family protein (FBL15) [Arabidopsis thaliana] (TAIR:AT4G33210.1); similar to Leucine Rich Repeat family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97769.1); contains InterPro domain Cyclin-like F-box; (InterPro:IPR001810); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611)\\
## Solyc07g005100 & AT4G19810 & glycosyl hydrolase family 18 protein; similar to glycosyl hydrolase family 18 protein [Arabidopsis thaliana] (TAIR:AT4G19820.1); similar to chitinase/lysozyme [Nicotiana tabacum] (GB:CAA55128.1); contains InterPro domain Chitinase II; (InterPro:IPR011583); contains InterPro domain Glycoside hydrolase, family 18; (InterPro:IPR001223)\\
## \addlinespace
## Solyc07g006120 & AT4G30510 & AtATG18b (Arabidopsis thaliana homolog of yeast autophagy 18 (ATG18) b); similar to AtATG18a (Arabidopsis thaliana homolog of yeast autophagy 18 (ATG18) a) [Arabidopsis thaliana] (TAIR:AT3G62770.2); similar to WD40-like [Medicago truncatula] (GB:ABE94693.1); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc07g006630 & NA & NA\\
## Solyc07g007860 & NA & NA\\
## Solyc07g007970 & AT5G52540 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G24000.1); similar to Protein of unknown function DUF819 [Medicago truncatula] (GB:ABE85318.1); contains InterPro domain Protein of unknown function DUF819; (InterPro:IPR008537)\\
## Solyc07g008700 & AT4G38170 & FRS9 (FAR1-related sequence 9); zinc ion binding; similar to FRS5 (FAR1-RELATED SEQUENCE 5), zinc ion binding [Arabidopsis thaliana] (TAIR:AT4G38180.1); similar to FAR1; Zinc finger, SWIM-type [Medicago truncatula] (GB:ABE89491.1); contains InterPro domain Zinc finger, PMZ-type; (InterPro:IPR006564); contains InterPro domain Zinc finger, SWIM-type; (InterPro:IPR007527); contains InterPro domain FAR1; (InterPro:IPR004330)\\
## \addlinespace
## Solyc07g009000 & NA & NA\\
## Solyc07g009370 & NA & NA\\
## Solyc07g018100 & AT3G28430 & similar to conserved hypothetical protein [Medicago truncatula] (GB:ABD28468.1); similar to Os04g0298600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052403.1); contains domain ARM repeat (SSF48371); contains domain SUBFAMILY NOT NAMED (PTHR21481:SF2); contains domain FAMILY NOT NAMED (PTHR21481)\\
## Solyc07g043120 & NA & NA\\
## Solyc07g045540 & AT5G35790 & Encodes a plastidic glucose-6-phosphate dehydrogenase that is sensitive to reduction by DTT and whose mRNA is more prevalent in developing organs but absent in the root.\\
## \addlinespace
## Solyc07g047950 & AT5G48150 & Member of GRAS gene family. Semi-dominant mutant has a reduced response to far-red light and appears to act early in the phytochrome A signaling pathway.\\
## Solyc07g051820 & NA & NA\\
## Solyc07g054580 & AT4G03400 & Encodes a GH3-related gene involved in red light-specific hypocotyl elongation. Analysis of sense and antisense transgenic plants suggests that DFL2 is located downstream of red light signal transduction and determines the degree of hypocotyl elongation.\\
## Solyc07g055040 & NA & NA\\
## Solyc07g055740 & AT3G57030 & strictosidine synthase family protein; similar to strictosidine synthase family protein [Arabidopsis thaliana] (TAIR:AT5G22020.1); similar to putative strictosidine synthase [Lycopersicon esculentum] (GB:AAF75751.1); contains InterPro domain Strictosidine synthase; (InterPro:IPR004141)\\
## \addlinespace
## Solyc07g063070 & AT1G28280 & VQ motif-containing protein; similar to VQ motif-containing protein [Arabidopsis thaliana] (TAIR:AT2G33780.1); similar to DNA-binding WRKY; VQ [Medicago truncatula] (GB:ABD32365.1); contains InterPro domain VQ; (InterPro:IPR008889)\\
## Solyc07g064370 & NA & NA\\
## Solyc07g064620 & AT5G54940 & eukaryotic translation initiation factor SUI1, putative; similar to eukaryotic translation initiation factor SUI1, putative [Arabidopsis thaliana] (TAIR:AT4G27130.1); similar to eukaryotic translation initiation factor SUI1, putative [Arabidopsis thaliana] (TAIR:AT5G54760.1); similar to eukaryotic translation initiation factor SUI1, putative [Arabidopsis thaliana] (TAIR:AT1G54290.1); similar to putative translation factor [Pinus pinaster] (GB:CAC84489.1); similar to Os05g0498400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055949.1); contains InterPro domain Translation initiation factor SUI1; (InterPro:IPR001950); contains InterPro domain Eukaryotic translation initiation factor SUI1; (InterPro:IPR005874)\\
## Solyc07g065130 & AT5G47540 & Mo25 family protein; Identical to Putative MO25-like protein At5g47540 [Arabidopsis Thaliana] (GB:Q9FGK3); similar to Mo25 family protein [Arabidopsis thaliana] (TAIR:AT4G17270.1); similar to MO25 protein -related [Brassica oleracea] (GB:ABD64974.1); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989)\\
## Solyc08g005150 & AT1G32340 & Encodes a protein whose sequence is similar to tobacco hairpin-induced gene (HIN1) and Arabidopsis non-race specific disease resistance gene (NDR1). Expression is not detected under normal conditions and in response to cucumber mosaic virus or spermine.\\
## \addlinespace
## Solyc08g006330 & NA & NA\\
## Solyc08g014430 & NA & NA\\
## Solyc08g014440 & AT1G05690 & BT3 (BTB and TAZ domain protein 3); protein binding / transcription regulator; similar to BT4 (BTB AND TAZ DOMAIN PROTEIN 4), protein binding [Arabidopsis thaliana] (TAIR:AT5G67480.2); similar to Os01g0893400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045064.1); similar to Zinc finger, TAZ-type; BTB/POZ [Medicago truncatula] (GB:ABE77424.1); contains InterPro domain Zinc finger, TAZ-type; (InterPro:IPR000197); contains InterPro domain BTB; (InterPro:IPR000210); contains InterPro domain BTB/POZ; (InterPro:IPR013069)\\
## Solyc08g015750 & NA & NA\\
## Solyc08g022110 & NA & NA\\
## \addlinespace
## Solyc08g045640 & NA & NA\\
## Solyc08g060860 & AT5G25360 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G15350.1); similar to hypothetical protein [Glycine max] (GB:AAN03467.1)\\
## Solyc08g062250 & NA & NA\\
## Solyc08g065140 & NA & NA\\
## Solyc08g067780 & NA & NA\\
## \addlinespace
## Solyc08g068150 & NA & NA\\
## Solyc08g068480 & AT4G03400 & Encodes a GH3-related gene involved in red light-specific hypocotyl elongation. Analysis of sense and antisense transgenic plants suggests that DFL2 is located downstream of red light signal transduction and determines the degree of hypocotyl elongation.\\
## Solyc08g074760 & AT2G35620 & leucine-rich repeat transmembrane protein kinase, putative; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT1G31420.1); similar to Os03g0266800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049659.1); similar to Os12g0638100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067376.1); similar to SERK1 protein [Zea mays] (GB:CAC37638.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, typical subtype; (InterPro:IPR003591); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc08g076810 & AT4G17910 & zinc finger (C3HC4-type RING finger) family protein / pentatricopeptide (PPR) repeat-containing protein; Identical to Putative RING-H2 finger protein ATL4H (ATL4H) [Arabidopsis Thaliana] (GB:P0C041;GB:O49690); Identical to Hypothetical PPR-repeat protein At4g17915 [Arabidopsis Thaliana] (GB:P0C043;GB:O49690); similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT5G46680.1); similar to Putative RING-H2 finger protein ATL4H (GB:P0C041); similar to Hypothetical PPR-repeat protein At4g17915 (GB:P0C043); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc08g076960 & AT4G17870 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G46790.1); similar to Streptomyces cyclase/dehydrase family protein [Brassica oleracea] (GB:ABD65175.1); contains InterPro domain Streptomyces cyclase/dehydrase; (InterPro:IPR005031)\\
## \addlinespace
## Solyc08g077500 & NA & NA\\
## Solyc08g082590 & NA & NA\\
## Solyc09g005620 & AT2G38270 & Encodes protein homologous to CXIP1. CXIP1 is a PICOT domain containing protein interacts with CAX1, a high capacity calcium transporter. However, CXP2 does not interact with CAX1 and only moderately activates another calcium transporter CAX4.\\
## Solyc09g006010 & NA & NA\\
## Solyc09g007060 & NA & NA\\
## \addlinespace
## Solyc09g008200 & NA & NA\\
## Solyc09g009950 & AT3G11460 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT4G30700.1); similar to Os01g0819800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044643.1); similar to Tetratricopeptide-like helical [Medicago truncatula] (GB:ABE79494.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc09g010640 & AT2G37570 & encodes a protein that can complement the salt-sensitive phenotype of a calcineurin (CaN)-deficient yeast mutant. This gene occurs in a single-copy and is 75% identical to tobacco SLT1 gene.\\
## Solyc09g011730 & NA & NA\\
## Solyc09g014210 & AT3G09060 & pentatricopeptide (PPR) repeat-containing protein; similar to MEE40 (maternal effect embryo arrest 40), binding [Arabidopsis thaliana] (TAIR:AT3G53700.1); similar to Os01g0852900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044829.1); similar to fertility restorer [Raphanus sativus] (GB:CAD61285.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc09g015070 & AT5G01670 & aldose reductase, putative; similar to oxidoreductase [Arabidopsis thaliana] (TAIR:AT2G37770.2); similar to Aldose reductase (AR) (Aldehyde reductase) (GB:P23901); contains InterPro domain Aldo/keto reductase; (InterPro:IPR001395)\\
## Solyc09g031800 & ATCG01280 & Identical to Protein ycf2 (ycf2-B) [Arabidopsis Thaliana] (GB:P56786); similar to hypothetical chloroplast RF2 [Vitis vinifera] (GB:YP_567121.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41290.1); similar to hypothetical chloroplast RF2 [Gossypium hirsutum] (GB:YP_538978.1); contains InterPro domain Chloroplast Ycf2; (InterPro:IPR008543); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc09g055320 & NA & NA\\
## Solyc09g056390 & NA & NA\\
## Solyc09g061940 & AT5G48940 & leucine-rich repeat transmembrane protein kinase, putative; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT3G24240.1); similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT4G26540.1); similar to ATP binding / protein serine/threonine kinase [Arabidopsis thaliana] (TAIR:AT5G56040.2); similar to putative receptor protein kinase [Oryza sativa (japonica cultivar-group)] (GB:BAD10022.1); similar to receptor protein kinase [Pinus sylvestris] (GB:CAC20842.1); similar to CLAVATA-like kinase [Triticum aestivum] (GB:CAJ19346.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, typical subtype; (InterPro:IPR003591); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## \addlinespace
## Solyc09g064850 & AT2G48150 & Encodes glutathione peroxidase.\\
## Solyc09g064900 & NA & NA\\
## Solyc09g065910 & NA & NA\\
## Solyc09g072790 & NA & NA\\
## Solyc09g072830 & NA & NA\\
## \addlinespace
## Solyc09g075500 & NA & NA\\
## Solyc09g075890 & AT2G32150 & haloacid dehalogenase-like hydrolase family protein; similar to haloacid dehalogenase-like hydrolase family protein [Arabidopsis thaliana] (TAIR:AT5G02230.2); similar to putative phosphatase [Phaseolus vulgaris] (GB:CAD57681.1); similar to putative hydrolase [Glycine max] (GB:AAM94615.1); contains InterPro domain HAD-superfamily hydrolase subfamily IA, variant 3; (InterPro:IPR006402); contains InterPro domain Pyrimidine 5-nucleotidase; (InterPro:IPR010237); contains InterPro domain Haloacid dehalogenase-like hydrolase; (InterPro:IPR005834)\\
## Solyc09g083190 & AT5G43750 & similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD88171.1)\\
## Solyc09g083290 & AT4G14550 & IAA14 is a member of the Aux/IAA protein family. Involved in lateral root development. Gain of function mutation decreases auxin-inducible gene expression. Protein is localized to the nucleus. Expressed in stele and root tip epidermis. Functions as a negative regulator of ARF7/19.\\
## Solyc09g089850 & AT3G23200 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G53850.1); similar to Os09g0249400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062672.1); similar to Protein of unknown function DUF588 [Medicago truncatula] (GB:ABE82916.1); similar to Os01g0847300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044796.1); contains InterPro domain Protein of unknown function DUF588; (InterPro:IPR006702)\\
## \addlinespace
## Solyc09g091160 & NA & NA\\
## Solyc09g091270 & NA & NA\\
## Solyc09g091800 & NA & NA\\
## Solyc09g092110 & NA & NA\\
## Solyc09g092520 & AT3G23730 & xyloglucan:xyloglucosyl transferase, putative / xyloglucan endotransglycosylase, putative / endo-xyloglucan transferase, putative; Identical to Probable xyloglucan endotransglucosylase/hydrolase protein 16 precursor (EC 2.4.1.207) (At-XTH16) (XTH-16) (XTH16) [Arabidopsis Thaliana] (GB:Q8LG58;GB:Q9LK45); similar to XTR7 (XYLOGLUCAN ENDOTRANSGLYCOSYLASE 7), hydrolase, acting on glycosyl bonds [Arabidopsis thaliana] (TAIR:AT4G14130.1); similar to Brassinosteroid-regulated protein BRU1 precursor (GB:P35694); similar to xyloglucan endotransglycosylase 3 [Litchi chinensis] (GB:ABK30789.1); contains InterPro domain Beta-glucanase; (InterPro:IPR008264); contains InterPro domain Glycoside hydrolase, family 16, active site; (InterPro:IPR008263); contains InterPro domain Concanavalin A-like lectin/glucanase, subgroup; (InterPro:IPR013320); contains InterPro domain Concanavalin A-like lectin/glucanase; (InterPro:IPR008985); contains InterPro domain Glycoside hydrolase, family 16; (InterPro:IPR000757); contains InterPro domain Xyloglucan endo-transglycosylase, C-terminal; (InterPro:IPR010713)\\
## \addlinespace
## Solyc09g092720 & NA & NA\\
## Solyc10g005180 & NA & NA\\
## Solyc10g005650 & AT5G56290 & Encodes the peroxisomal targeting signal type 1 receptor that facilitates peroxisomal protein translocation. It recognizes proteins with the PTS1 consensus sequence (tripeptide SKL or a conserved variant) at the extreme C terminus. The protein has several domains, including C-terminal tetratricopeptide repeat motifs which act in binding the C-terminal \SKL\" targeting signal. The mechanism of transport has been worked out in other organisms: The receptor recognizes and binds cytosolic PTS1-containing proteins. The PEX5-PTS1 complex binds a PEX14/PEX13 receptor complex at the peroxisome membrane and is translocated into the peroxisome matrix in a process dependent on PEX2,PEX10, and PEX12. In the peroxisome matrix, PEX5 releases its cargo and is recycled to the cytosol in a process dependent on PEX1, PEX4, PEX6 and PEX22. It is also involved, in conjunction with PEX7, in PTS1- and PTS2-dependent peroxisomal protein import. RNAi experiments suggest that PEX5 is necessary for the maintenance of both glyoxysomal and leaf peroxisomal functions."\\
## Solyc10g005900 & AT1G55750 & transcription factor-related; similar to transcription factor-related [Arabidopsis thaliana] (TAIR:AT3G61420.1); similar to IMP dehydrogenase/GMP reductase [Medicago truncatula] (GB:ABE86684.1); similar to Os08g0338200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061583.1); contains InterPro domain BSD; (InterPro:IPR005607)\\
## Solyc10g007010 & NA & NA\\
## \addlinespace
## Solyc10g008350 & NA & NA\\
## Solyc10g008790 & NA & NA\\
## Solyc10g017570 & NA & NA\\
## Solyc10g047270 & AT5G09400 & potassium transporter\\
## Solyc10g047420 & ATCG01050 & Represents a plastid-encoded subunit of a NAD(P)H dehydrogenase complex. Its mRNA is edited at four positions. Translation data is not available for this gene.\\
## \addlinespace
## Solyc10g047890 & NA & NA\\
## Solyc10g050160 & AT4G34050 & caffeoyl-CoA 3-O-methyltransferase, putative; Identical to Probable caffeoyl-CoA O-methyltransferase At4g34050 (EC 2.1.1.104) (Trans-caffeoyl-CoA 3-O-methyltransferase) (CCoAMT) (CCoAOMT) [Arabidopsis Thaliana] (GB:O49499;GB:Q8L989); similar to caffeoyl-CoA 3-O-methyltransferase, putative [Arabidopsis thaliana] (TAIR:AT4G26220.1); similar to putative caffeoyl-CoA O-methyltransferase protein [Isatis tinctoria] (GB:AAZ95245.1); contains InterPro domain O-methyltransferase, family 3; (InterPro:IPR002935)\\
## Solyc10g055560 & NA & NA\\
## Solyc10g074440 & AT3G12500 & encodes a basic chitinase involved in ethylene/jasmonic acid mediated signalling pathway during systemic acquired resistance based on expression analyses.\\
## Solyc10g076180 & NA & NA\\
## \addlinespace
## Solyc10g078540 & NA & NA\\
## Solyc10g078570 & NA & NA\\
## Solyc10g078920 & AT5G06690 & (THIOREDOXIN-LIKE 5); thiol-disulfide exchange intermediate; Identical to Thioredoxin-like 5, chloroplast precursor [Arabidopsis Thaliana] (GB:Q9FG36;GB:Q9SWQ2;GB:Q9XFI2); similar to thioredoxin family protein [Arabidopsis thaliana] (TAIR:AT5G04260.1); similar to Thioredoxin-like 5, chloroplast precursor (GB:Q9FG36); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Thioredoxin-related; (InterPro:IPR006662); contains InterPro domain Thioredoxin domain 2; (InterPro:IPR006663); contains InterPro domain Thioredoxin domain; (InterPro:IPR013766); contains InterPro domain Thioredoxin fold; (InterPro:IPR012335)\\
## Solyc10g081720 & AT5G06390 & beta-Ig-H3 domain-containing protein / fasciclin domain-containing protein; Identical to Fasciclin-like arabinogalactan protein 17 precursor (FLA17) [Arabidopsis Thaliana] (GB:Q66GR0;GB:Q9FNG9); similar to beta-Ig-H3 domain-containing protein / fasciclin domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G52370.1); similar to beta-Ig-H3 domain-containing protein / fasciclin domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G11700.1); similar to beta-Ig-H3 domain-containing protein / fasciclin domain-containing protein [Arabidopsis thaliana] (TAIR:AT2G35860.1); similar to Os03g0788600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051504.1); similar to fasciclin-like protein FLA26 [Triticum aestivum] (GB:ABI95416.1); contains InterPro domain Beta-Ig-H3/fasciclin; (InterPro:IPR000782)\\
## Solyc10g082030 & AT5G06290 & 2-cys peroxiredoxin, chloroplast, putative; similar to 2-cys peroxiredoxin, chloroplast (BAS1) [Arabidopsis thaliana] (TAIR:AT3G11630.1); similar to 2-Cys peroxiredoxin [Brassica napus] (GB:AAG30570.1); contains InterPro domain Thioredoxin-like fold; (InterPro:IPR012336); contains InterPro domain Thioredoxin fold; (InterPro:IPR012335); contains InterPro domain Alkyl hydroperoxide reductase/ Thiol specific antioxidant/ Mal allergen; (InterPro:IPR000866)\\
## \addlinespace
## Solyc10g083170 & NA & NA\\
## Solyc10g086060 & NA & NA\\
## Solyc11g006300 & AT5G16010 & 3-oxo-5-alpha-steroid 4-dehydrogenase family protein / steroid 5-alpha-reductase family protein; similar to ATTSC13/CER10/ECR/TSC13 (ENOYL-COA REDUCTASE), 3-oxo-5-alpha-steroid 4-dehydrogenase/ fatty acid elongase/ trans-2-enoyl-CoA reductase (NADPH) [Arabidopsis thaliana] (TAIR:AT3G55360.1); similar to hypothetical protein DDBDRAFT_0190926 [Dictyostelium discoideum AX4] (GB:XP_646664.1); similar to Os07g0162100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058945.1); contains InterPro domain 3-oxo-5-alpha-steroid 4-dehydrogenase, C-terminal; (InterPro:IPR001104)\\
## Solyc11g008980 & AT2G47840 & tic20 protein-related; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G55710.1); similar to Os02g0726600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047992.1); similar to Profilin (ISS) [Ostreococcus tauri] (GB:CAL54954.1)\\
## Solyc11g012230 & NA & NA\\
## \addlinespace
## Solyc11g012700 & AT4G16370 & oligopeptide transporter\\
## Solyc11g044600 & ATCG01050 & Represents a plastid-encoded subunit of a NAD(P)H dehydrogenase complex. Its mRNA is edited at four positions. Translation data is not available for this gene.\\
## Solyc11g065680 & NA & NA\\
## Solyc11g065780 & NA & NA\\
## Solyc11g065980 & AT1G63780 & Small nucleolar ribonucleoprotein protein involved in ribosomal RNA processing. Located in nucleolus and cajal bodies.\\
## \addlinespace
## Solyc11g065990 & AT3G12110 & Encodes an actin that is expressed predominantly during reproductive development.\\
## Solyc11g066940 & NA & NA\\
## Solyc11g068710 & NA & NA\\
## Solyc11g071820 & AT5G22050 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT3G19300.1); similar to Os07g0159700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058933.1); similar to H0814G11.12 [Oryza sativa (indica cultivar-group)] (GB:CAJ86345.1); similar to Os04g0689400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054345.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245)\\
## Solyc11g073090 & AT3G55350 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G63270.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABA95488.2); similar to Os11g0702700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001068533.1); contains InterPro domain Trp repressor/replication initiator; (InterPro:IPR010921)\\
## \addlinespace
## Solyc12g005910 & AT5G42570 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G48660.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD69146.1); similar to Os02g0321800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046689.1); similar to Os05g0272900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055067.1); contains InterPro domain B-cell receptor-associated 31-like; (InterPro:IPR008417)\\
## Solyc12g006570 & NA & NA\\
## Solyc12g006970 & NA & NA\\
## Solyc12g014030 & NA & NA\\
## Solyc12g017520 & NA & NA\\
## \addlinespace
## Solyc12g019000 & NA & NA\\
## Solyc12g019410 & AT2G31800 & ankyrin protein kinase, putative; similar to ankyrin protein kinase, putative (APK1) [Arabidopsis thaliana] (TAIR:AT2G43850.1); similar to ankyrin protein kinase, putative [Arabidopsis thaliana] (TAIR:AT3G59830.1); similar to ankyrin protein kinase [Brassica napus] (GB:AAT94403.1); similar to ankyrin protein kinase [Brassica rapa] (GB:AAT94402.1); similar to flag-tagged protein kinase domain of putative mitogen-activated protein kinase kinase kinase [synthetic construct] (GB:ABK06433.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Ankyrin; (InterPro:IPR002110); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc12g043000 & AT1G52360 & coatomer protein complex, subunit beta 2 (beta prime), putative; similar to coatomer protein complex, subunit beta 2 (beta prime), putative [Arabidopsis thaliana] (TAIR:AT3G15980.3); similar to coatomer protein complex, subunit beta 2 (beta prime), putative [Arabidopsis thaliana] (TAIR:AT1G79990.1); similar to Coatomer protein complex, subunit beta 2 (beta prime) [Rattus norve (GB:AAH88397.1); similar to putative coatomer protein complex, subunit beta 2 (beta prime) [Oryza sativa (japonica cultivar-group)] (GB:BAD25014.1); similar to putative Gol (GB:BAD25013.1); contains InterPro domain C2; (InterPro:IPR000008); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain Quinoprotein amine dehydrogenase, beta chain-like; (InterPro:IPR011044); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990); contains InterPro domain Coatomer WD associated region; (InterPro:IPR006692)\\
## Solyc12g044230 & AT2G25737 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G36630.1); similar to unknown [Brassica napus] (GB:AAY63998.1); contains InterPro domain Protein of unknown function DUF81; (InterPro:IPR002781)\\
## Solyc12g044250 & AT1G79870 & oxidoreductase family protein; similar to oxidoreductase family protein [Arabidopsis thaliana] (TAIR:AT1G12550.1); similar to hydroxyphenylpyruvate reductase (HPPR) [Solenostemon scutellarioides] (GB:CAD47810.2); contains InterPro domain D-isomer specific 2-hydroxyacid dehydrogenase, catalytic region; (InterPro:IPR006139); contains InterPro domain D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding; (InterPro:IPR006140)\\
## \addlinespace
## Solyc12g044310 & AT1G52190 & proton-dependent oligopeptide transport (POT) family protein; similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT3G16180.1); similar to TGF-beta receptor, type I/II extracellular re (GB:ABD32296.1); similar to TGF-beta receptor, type I/II extracellular re (GB:ABD32298.1); contains InterPro domain TGF-beta receptor, type I/II extracellular region; (InterPro:IPR000109)\\
## Solyc12g049590 & AT3G14270 & Encodes a FYVE domain protein containing the following domains: FYVE + Chaperonin + PIP5K.\\
## Solyc12g056460 & AT2G45660 & Controls flowering and is required for CO to promote flowering. It acts downstream of FT. Overexpression of (SOC1) AGL20 suppresses not only the late flowering of plants that have functional FRI and FLC alleles but also the delayed phase transitions during the vegetative stages of\\
## Solyc12g056560 & NA & NA\\
## Solyc12g056710 & NA & NA\\
## \addlinespace
## Solyc12g088460 & AT4G37340 & member of CYP81D\\
## Solyc12g096030 & AT1G72820 & mitochondrial substrate carrier family protein; similar to mitochondrial substrate carrier family protein [Arabidopsis thaliana] (TAIR:AT5G26200.1); similar to Os09g0444700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063299.1); similar to Os03g0175200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049133.1); similar to mitochondrial carrier, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF94258.1); contains InterPro domain Mitochondrial carrier protein; (InterPro:IPR002067); contains InterPro domain Mitochondrial substrate carrier; (InterPro:IPR001993)\\
## Solyc12g096100 & AT4G19100 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G52780.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAD61615.1)\\
## Solyc12g097030 & AT4G17740 & C-terminal processing protease, putative; similar to peptidase S41 family protein [Arabidopsis thaliana] (TAIR:AT3G57680.1); similar to C-terminal processing protease, putative [Brassica oleracea] (GB:ABD65160.1); contains InterPro domain PDZ/DHR/GLGF; (InterPro:IPR001478); contains InterPro domain Peptidase S41; (InterPro:IPR005151); contains InterPro domain Peptidase S41A, C-terminal protease; (InterPro:IPR004447)\\
## Solyc12g097060 & NA & NA\\
## Solyc12g098970 & NA & NA\\
## \bottomrule
## \end{tabular}Cluster 32
Aothoer and Bother up-regulated compared to mbr.
clusterVis(32)## Using gene as id variables
clusterVis_PCA(32)
clusterVis_line(32)## Using gene, curated as id variables
#clusterGO(32)
y <- genesInClust(32, data.val2, annotation) ## [1] 218kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc01g007260 & NA & NA\\
## Solyc01g008930 & AT3G09150 & Required for biosynthesis of the tetrapyrrole phytochrome chromophore phytochromobilin. Encodes phytochromobilin synthase, a ferredoxin-dependent biliverdin reductase. It is necessary for coupling the expression of some nuclear genes to the functional state of the chloroplast.\\
## Solyc01g010130 & NA & NA\\
## Solyc01g010710 & NA & NA\\
## Solyc01g067710 & AT3G05030 & member of Sodium proton exchanger family\\
## \addlinespace
## Solyc01g068360 & AT3G03770 & leucine-rich repeat transmembrane protein kinase, putative; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT5G14210.1); similar to putative brassinosteroid LRR receptor kinase protein [Oryza sativa (japonica cultivar-group)] (GB:BAC07439.1); similar to transmembrane protein kinase [Oryza sativa (japonica cultivar-group)] (GB:AAQ01159.1); similar to Protein kinase [Medicago truncatula] (GB:ABD28527.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090)\\
## Solyc01g074030 & AT2G44480 & glycosyl hydrolase family 1 protein; similar to glycosyl hydrolase family 1 protein [Arabidopsis thaliana] (TAIR:AT2G44450.1); similar to Glycoside hydrolase, family 1 [Medicago truncatula] (GB:ABE86373.1); contains InterPro domain 6-phospho-beta-galactosidase, eukaryotic; (InterPro:IPR011580); contains InterPro domain Glycoside hydrolase, family 1; (InterPro:IPR001360)\\
## Solyc01g080580 & AT5G18860 & inosine-uridine preferring nucleoside hydrolase family protein; similar to inosine-uridine preferring nucleoside hydrolase family protein [Arabidopsis thaliana] (TAIR:AT5G18890.1); similar to putative inosine-uridine preferring nucleoside hydrolase [Oryza sativa (japonica cultivar-group)] (GB:AAT38028.1); similar to hypothetical protein [Cleome spinosa] (GB:ABD96887.1); similar to putative inosine-uridine preferring nucleoside hydrolase [Oryza sativa (japonica cultivar-group)] (GB:AAT38027.1); contains InterPro domain Inosine/uridine-preferring nucleoside hydrolase; (InterPro:IPR001910)\\
## Solyc01g087850 & NA & NA\\
## Solyc01g094970 & AT3G61490 & glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein; similar to glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein [Arabidopsis thaliana] (TAIR:AT4G23500.1); similar to Glycoside hydrolase, family 28 [Medicago truncatula] (GB:ABE85309.1); similar to Peptidase S26A, signal peptidase I; Glycoside hydrolase, family 28 [Medicago truncatula] (GB:ABE85310.1); similar to polygalacturonase-like protein [Fragaria x ananassa] (GB:AAP33475.1); contains InterPro domain Virulence factor, pectin lyase fold; (InterPro:IPR011050); contains InterPro domain Glycoside hydrolase, family 28; (InterPro:IPR000743); contains InterPro domain Pectolytic enzyme, Pectin lyase fold; (InterPro:IPR012334); contains InterPro domain Parallel beta-helix repeat; (InterPro:IPR006626)\\
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## Solyc01g095700 & AT5G53160 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G01360.1); similar to CAPIP1 [Capsicum annuum] (GB:AAT35532.1); similar to CAPIP1-like [Solanum tuberosum] (GB:ABB29920.1); contains domain Bet v1-like (SSF55961); contains domain no description (G3D.3.30.530.20)\\
## Solyc01g103530 & AT4G20270 & Encodes a CLAVATA1-related receptor kinase-like protein required for both shoot and flower meristem function. It has a broad expression pattern and is involved in vascular strand development in the leaf, control of leaf shape, size and symmetry, male gametophyte development and ovule specification and function.\\
## Solyc01g104710 & NA & NA\\
## Solyc01g107800 & AT5G67210 & nucleic acid binding / pancreatic ribonuclease; similar to nucleic acid binding / pancreatic ribonuclease [Arabidopsis thaliana] (TAIR:AT3G50220.1); similar to Uncharacterized plant-specific domain 01627 [Medicago truncatula] (GB:ABE82263.1); contains InterPro domain Protein of unknown function DUF579, plant; (InterPro:IPR006514); contains InterPro domain Pancreatic ribonuclease; (InterPro:IPR001427)\\
## Solyc01g107890 & NA & NA\\
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## Solyc01g108390 & NA & NA\\
## Solyc01g110340 & AT4G39010 & glycosyl hydrolase family 9 protein; Identical to Endoglucanase 24 precursor (EC 3.2.1.4) (Endo-1,4-beta glucanase 24) [Arabidopsis Thaliana] (GB:Q93YQ7;GB:Q9SVJ2); similar to glycosyl hydrolase family 9 protein [Arabidopsis thaliana] (TAIR:AT4G39000.1); similar to Os09g0530200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063747.1); similar to endo-1,4-beta-glucanase precursor [Glycine max] (GB:ABC70310.1); similar to putative endo-1,4-beta-glucanase [Eucalyptus globulus] (GB:AAZ08323.1); contains InterPro domain Six-hairpin glycosidase; (InterPro:IPR008928); contains InterPro domain Glycoside transferase, six-hairpin, subgroup; (InterPro:IPR012343); contains InterPro domain Glycoside hydrolase, family 9; (InterPro:IPR001701)\\
## Solyc01g111100 & AT4G34860 & beta-fructofuranosidase, putative / invertase, putative / saccharase, putative / beta-fructosidase, putative; similar to beta-fructofuranosidase, putative / invertase, putative / saccharase, putative / beta-fructosidase, putative [Arabidopsis thaliana] (TAIR:AT4G09510.1); similar to CINV1 (CYTOSOLIC INVERTASE 1), beta-fructofuranosidase [Arabidopsis thaliana] (TAIR:AT1G35580.2); similar to beta-fructofuranosidase, putative / invertase, putative / saccharase, putative / beta-fructosidase, putative [Arabidopsis thaliana] (TAIR:AT1G22650.1); similar to putative neutral/alkaline invertase [Lotus japonicus] (GB:CAG30577.1); similar to Plant neutral invertase [Medicago truncatula] (GB:ABE77865.1); similar to neutral/alkaline invertase [Manihot esculenta] (GB:ABA08442.1); contains InterPro domain Six-hairpin glycosidase; (InterPro:IPR008928); contains InterPro domain Plant neutral invertase; (InterPro:IPR006937)\\
## Solyc01g112140 & NA & NA\\
## Solyc02g036350 & AT1G05010 & Encodes 1-aminocyclopropane-1-carboxylate oxidase\\
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## Solyc02g070040 & NA & NA\\
## Solyc02g071700 & NA & NA\\
## Solyc02g071710 & AT1G29670 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase/hydrolase family protein [Arabidopsis thaliana] (TAIR:AT1G29660.1); similar to GDSL-lipase 1 [Capsicum annuum] (GB:AAZ23955.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc02g079760 & NA & NA\\
## Solyc02g080900 & AT1G11915 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G17350.1); similar to Os05g0409100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055526.1); similar to Os06g0364500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057608.1)\\
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## Solyc02g081170 & AT4G04020 & Fibrillin precursor protein. The fibrillin preprotein, but not the mature protein interacts with ABI2. Regulated by abscisic acid response regulators. Involved in abscisic acid-mediated photoprotection.\\
## Solyc02g082680 & NA & NA\\
## Solyc02g084390 & NA & NA\\
## Solyc02g084430 & NA & NA\\
## Solyc02g084540 & AT4G36210 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G18100.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABF93615.1); similar to Os03g0112800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048731.1); contains InterPro domain Protein of unknown function DUF726; (InterPro:IPR007941)\\
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## Solyc02g088230 & AT1G14040 & similar to EXS family protein / ERD1/XPR1/SYG1 family protein [Arabidopsis thaliana] (TAIR:AT2G03260.1); similar to EXS family protein / ERD1/XPR1/SYG1 family protein [Arabidopsis thaliana] (TAIR:AT2G03250.1); similar to EXS family protein / ERD1/XPR1/SYG1 family protein [Arabidopsis thaliana] (TAIR:AT2G03240.1); similar to SPX, N-terminal; EXS, C-terminal [Medicago truncatula] (GB:ABD32751.1); contains InterPro domain SPX, N-terminal; (InterPro:IPR004331); contains InterPro domain EXS, C-terminal; (InterPro:IPR004342)\\
## Solyc02g088690 & AT3G29360 & UDP-glucose 6-dehydrogenase, putative; similar to ATUGD1/UGD1 (UDP-glucose dehydrogenase 1), UDP-glucose 6-dehydrogenase [Arabidopsis thaliana] (TAIR:AT1G26570.1); similar to UDP-glucose 6-dehydrogenase, putative [Arabidopsis thaliana] (TAIR:AT5G39320.1); similar to UDP-glucose 6-dehydrogenase, putative [Arabidopsis thaliana] (TAIR:AT5G15490.1); similar to UDP-glucose 6-dehydrogenase (UDP-Glc dehydrogenase) (UDP-GlcDH) (UDPGDH) (GB:Q96558); similar to UDP-glucose dehydrogenase [Cinnamomum osmophloeum] (GB:AAR84297.1); similar to putative UDP-glucose dehydrogenase 1 [Nicotiana tabacum] (GB:AAT40105.1); contains InterPro domain UDP-glucose/GDP-mannose dehydrogenase; (InterPro:IPR001732); contains InterPro domain 6-phosphogluconate dehydrogenase, C-terminal-like; (InterPro:IPR008927)\\
## Solyc02g089620 & AT5G38710 & proline oxidase, putative / osmotic stress-responsive proline dehydrogenase, putative; similar to ERD5 (EARLY RESPONSIVE TO DEHYDRATION 5, PROLINE OXIDASE), proline dehydrogenase [Arabidopsis thaliana] (TAIR:AT3G30775.1); similar to proline dehydrogenase [Glycine max] (GB:AAR86686.1); contains InterPro domain Proline dehydrogenase; (InterPro:IPR002872)\\
## Solyc02g091360 & NA & NA\\
## Solyc02g091830 & AT4G37840 & Encodes a putative hexokinase.\\
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## Solyc02g091930 & AT4G37790 & Encodes homeobox protein HAT22.\\
## Solyc02g092250 & NA & NA\\
## Solyc02g092370 & AT4G37650 & Involved in radial organization of the root and shoot axial organs. Essential for normal shoot gravitropism. The protein moves in a highly specific manner from the cells of the stele in which it is synthesized outward.\\
## Solyc02g092590 & NA & NA\\
## Solyc02g094060 & AT5G40890 & Encodes a member of the voltage-dependent chloride channel. Mutants homozygous for the T-DNA insertion mutation have reduced nitrate uptake capacity in high nitrate environment and exhibit hypersensitivity to chlorate.\\
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## Solyc02g094210 & NA & NA\\
## Solyc03g005960 & NA & NA\\
## Solyc03g006220 & AT1G29050 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G34070.1); similar to unknown [Pisum sativum] (GB:ABA29158.1); contains InterPro domain Protein of unknown function DUF231, plant; (InterPro:IPR004253)\\
## Solyc03g006250 & AT1G28590 & lipase, putative; similar to lipase, putative [Arabidopsis thaliana] (TAIR:AT2G27360.1); similar to lipase 1 [Brassica napus] (GB:AAX59709.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc03g006260 & NA & NA\\
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## Solyc03g025430 & NA & NA\\
## Solyc03g034370 & NA & NA\\
## Solyc03g080080 & AT5G54130 & calcium ion binding; similar to endonuclease/exonuclease/phosphatase family protein / calcium-binding EF hand family protein [Arabidopsis thaliana] (TAIR:AT1G02270.1); similar to Calcium-binding EF-hand; Endonuclease/exonuclease/phosphatase [Medicago truncatula] (GB:ABE85174.1); contains InterPro domain EF-Hand type; (InterPro:IPR011992); contains InterPro domain Calcium-binding EF-hand; (InterPro:IPR002048); contains InterPro domain Endonuclease/exonuclease/phosphatase; (InterPro:IPR005135)\\
## Solyc03g081230 & AT5G53730 & harpin-induced family protein / HIN1 family protein / harpin-responsive family protein; similar to harpin-induced family protein / HIN1 family protein / harpin-responsive family protein [Arabidopsis thaliana] (TAIR:AT3G44220.1); similar to Hairpin-induced family protein [Ipomoea nil] (GB:BAE94402.1); contains InterPro domain Harpin-induced 1; (InterPro:IPR010847)\\
## Solyc03g081260 & AT1G32960 & subtilase family protein; similar to subtilase family protein [Arabidopsis thaliana] (TAIR:AT1G32950.1); similar to subtilase family protein [Arabidopsis thaliana] (TAIR:AT4G10540.1); similar to subtilase family protein [Arabidopsis thaliana] (TAIR:AT1G32940.1); similar to Os09g0530800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063751.1); similar to Protease-associated PA; Proteinase inhibitor I9, subtilisin propeptide [Medicago truncatula] (GB:ABE90461.1); contains InterPro domain Protease-associated PA; (InterPro:IPR003137); contains InterPro domain Peptidase S8 and S53, subtilisin, kexin, sedolisin; (InterPro:IPR000209); contains InterPro domain Proteinase inhibitor I9, subtilisin propeptide; (InterPro:IPR010259); contains InterPro domain Proteinase inhibitor, propeptide; (InterPro:IPR009020)\\
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## Solyc03g082670 & NA & NA\\
## Solyc03g093330 & AT5G61480 & leucine-rich repeat transmembrane protein kinase, putative; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT4G28650.1); similar to CLAVATA1 receptor kinase (CLV1) [Arabidopsis thaliana] (TAIR:AT1G08590.1); similar to BAM1 (big apical meristem 1), ATP binding / kinase/ protein serine/threonine kinase [Arabidopsis thaliana] (TAIR:AT5G65700.1); similar to putative receptor-like protein kinase 1 [Oryza sativa (japonica cultivar-group)] (GB:AAP68887.1); similar to Protein kinase; Actin-binding, actinin-type [Medicago truncatula] (GB:ABE92015.1); similar to Hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAO17351.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc03g095310 & AT5G24910 & member of CYP714A\\
## Solyc03g098660 & NA & NA\\
## Solyc03g112390 & NA & NA\\
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## Solyc03g112760 & AT3G48200 & similar to Os05g0594500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001056507.1); similar to IMP dehydrogenase/GMP reductase [Medicago truncatula] (GB:ABE93579.1); contains domain gb def: Hypothetical protein At3g48200 (PTHR12326:SF1); contains domain UNCHARACTERIZED (PTHR12326)\\
## Solyc03g113060 & AT3G47780 & member of ATH subfamily\\
## Solyc03g113460 & AT2G47130 & short-chain dehydrogenase/reductase (SDR) family protein; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT3G29260.1); similar to 3-beta hydroxysteroid dehydrogenase [Di (GB:AAV68714.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc03g114240 & AT1G70370 & BURP domain-containing protein / polygalacturonase, putative; Identical to Probable polygalacturonase non-catalytic subunit JP650 precursor (Aromatic-rich glycoprotein JP650) (JP650) [Arabidopsis Thaliana] (GB:P92990;GB:O64599;GB:Q8H7B8;GB:Q93ZQ4); similar to JP630, polygalacturonase [Arabidopsis thaliana] (TAIR:AT1G23760.1); similar to BURP domain-containing protein / polygalacturonase, putative [Arabidopsis thaliana] (TAIR:AT1G60390.1); similar to Polygalacturonase-1 non-catalytic subunit beta precursor (AroGP1) (Polygalacturonase converter) (PG converter) (GB:Q40161); similar to polygalacturonase isoenzyme 1 beta subunit homolog (GB:AAB39546.1); similar to Polygalacturonase non-catalytic subunit AroGP2 precursor (GB:P93217); contains InterPro domain BURP; (InterPro:IPR004873)\\
## Solyc03g117800 & AT5G57800 & encodes a transmembrane protein with similarity to the sterol desaturase family at the N-terminus and to the short-chain dehydrogenase/reductase family at the C-terminus. Mutant analyses indicate this protein is involved in cuticle membrane and wax biosynthesis.\\
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## Solyc03g120710 & NA & NA\\
## Solyc03g121090 & NA & NA\\
## Solyc03g121170 & AT3G16370 & GDSL-motif lipase/hydrolase family protein; similar to GDSL-motif lipase, putative [Arabidopsis thaliana] (TAIR:AT5G22810.1); similar to Lipolytic enzyme, G-D-S-L [Medicago truncatula] (GB:ABE90349.1); contains InterPro domain Lipolytic enzyme, G-D-S-L; (InterPro:IPR001087)\\
## Solyc03g121970 & NA & NA\\
## Solyc03g122300 & AT1G72510 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G09970.1); similar to 4Fe-4S ferredoxin, iron-sulfur binding [Medicago truncatula] (GB:ABE81755.1); contains InterPro domain Protein of unknown function DUF1677, plant; (InterPro:IPR012876)\\
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## Solyc04g005100 & AT1G70000 & DNA-binding family protein; similar to myb family transcription factor [Arabidopsis thaliana] (TAIR:AT5G47390.1); similar to MYB transcription factor MYB138 [Glycine max] (GB:ABH02859.1); contains InterPro domain Homeodomain-related; (InterPro:IPR012287); contains InterPro domain Homeodomain-like; (InterPro:IPR009057); contains InterPro domain Myb-like DNA-binding region, SHAQKYF class; (InterPro:IPR006447); contains InterPro domain Myb, DNA-binding; (InterPro:IPR001005); contains InterPro domain Zinc finger, CCHC-type; (InterPro:IPR001878)\\
## Solyc04g005800 & NA & NA\\
## Solyc04g008430 & AT2G01950 & Similar to BRI, brassinosteroid receptor protein.\\
## Solyc04g008850 & AT3G20015 & pepsin A; similar to aspartyl protease family protein [Arabidopsis thaliana] (TAIR:AT3G18490.1); similar to H0402C08.5 [Oryza sativa (indica cultivar-group)] (GB:CAJ86229.1); contains InterPro domain Peptidase A1, pepsin; (InterPro:IPR001461); contains InterPro domain Peptidase aspartic, catalytic; (InterPro:IPR009007)\\
## Solyc04g024830 & NA & NA\\
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## Solyc04g024840 & NA & NA\\
## Solyc04g028470 & NA & NA\\
## Solyc04g049090 & AT1G61560 & A member of a large family of seven-transmembrane domain proteins specific to plants, homologs of the barley mildew resistance locus o (MLO) protein. The Arabidopsis genome contains 15 genes encoding MLO proteins, with localization in plasma membrane. Phylogenetic analysis revealed four clades of closely-related AtMLO genes. ATMLO6 belongs to the clade IV, with AtMLO2, AtMLO3 and AtMLO12. The gene is expressed during early seedling growth, in roots and lateral root primordia, in flower and fruit abscission zone, in vascular system of cotyledons, young leaves and petals, in mature rosette leaves, in anthers, as shown by GUS activity patterns. The expression of several phylogenetically closely-related AtMLO genes showed similar or overlapping tissue specificity and analogous responsiveness to external stimuli, suggesting functional redundancy, co-function, or antagonistic function(s).\\
## Solyc04g049340 & NA & NA\\
## Solyc04g054260 & NA & NA\\
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## Solyc04g054690 & AT4G39830 & L-ascorbate oxidase, putative; similar to L-ascorbate oxidase, putative [Arabidopsis thaliana] (TAIR:AT5G21100.1); similar to putative syringolide-induced protein B13-1-1 [Oryza sativa (japonica cultivar-group)] (GB:BAD33459.1); similar to ascorbate oxidase [Lycopersicon esculentum] (GB:AAY47050.1); similar to syringolide-induced protein B13-1-1 [Glycine max] (GB:BAB86897.1); contains InterPro domain Multicopper oxidase, copper-binding site; (InterPro:IPR002355); contains InterPro domain Cupredoxin; (InterPro:IPR008972); contains InterPro domain Multicopper oxidase, type 3; (InterPro:IPR011707); contains InterPro domain Multicopper oxidase, type 2; (InterPro:IPR011706); contains InterPro domain Multicopper oxidase, type 1; (InterPro:IPR001117)\\
## Solyc04g064770 & NA & NA\\
## Solyc04g071620 & NA & NA\\
## Solyc04g071800 & NA & NA\\
## Solyc04g071820 & NA & NA\\
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## Solyc04g074310 & NA & NA\\
## Solyc04g079600 & NA & NA\\
## Solyc04g079960 & AT4G36810 & Encodes a protein with geranylgeranyl pyrophosphate synthase activity involved in isoprenoid biosynthesis. The enzyme appears to be targeted to the chloroplast in epidermal cells and guard cells of leaves, and in etioplasts in roots.\\
## Solyc04g080450 & AT1G19440 & very-long-chain fatty acid condensing enzyme, putative; Identical to Probable 3-ketoacyl-CoA synthase 4 (EC 2.3.1.-) (KCS-4) (Very-long- chain fatty acid condensing enzyme 4) (VLCFA condensing enzyme 4) (KCS4) [Arabidopsis Thaliana] (GB:Q9LN49); similar to very-long-chain fatty acid condensing enzyme, putative [Arabidopsis thaliana] (TAIR:AT2G16280.1); similar to beta-ketoacyl-CoA synthase, putative [Arabidopsis thaliana] (TAIR:AT2G26640.1); similar to KCS2 (3-ketoacyl-CoA synthase 2), acyltransferase [Arabidopsis thaliana] (TAIR:AT4G34510.1); similar to beta-ketoacyl-CoA-synthase [Marchantia polymorpha] (GB:AAO48425.1); similar to Chalcone and stilbene synthases, N-terminal [Medicago truncatula] (GB:ABE82745.1); similar to FAE1 [Marchantia polymorpha] (GB:AAP74371.1); contains InterPro domain Chalcone and stilbene synthases, N-terminal; (InterPro:IPR001099); contains InterPro domain FAE1/Type III polyketide synthase-like protein; (InterPro:IPR013601); contains InterPro domain Very-long-chain 3-ketoacyl-CoA synthase; (InterPro:IPR012392); contains InterPro domain Chalcone and stilbene synthases, C-terminal; (InterPro:IPR012328)\\
## Solyc04g080940 & AT1G75500 & nodulin MtN21 family protein; similar to nodulin MtN21 family protein [Arabidopsis thaliana] (TAIR:AT3G53210.1); similar to putative MtN21 [Oryza sativa (japonica cultivar-group)] (GB:BAD13218.1); contains InterPro domain Protein of unknown function DUF6, transmembrane; (InterPro:IPR000620)\\
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## Solyc04g081890 & NA & NA\\
## Solyc05g005010 & AT1G70550 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G10750.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G23340.2); similar to putative carboxyl-terminal proteinase [Gossypium hirsutum] (GB:AAK84952.2); contains InterPro domain Protein of unknown function DUF239, plant; (InterPro:IPR004314)\\
## Solyc05g005080 & AT5G49720 & Encodes a membrane-bound endo-1,4-beta-D-glucanase, involved in cellulose biosynthesis. Loss-of-function mutants have severe cellulose-deficient phenotypes. During cell elongation, KOR1 is associated with Golgi apparatus and early endosome. Inhibition of cellulose biosynthesis promoted a redistribution of KOR1 in subcellular locations. These observations suggest that deposition of cellulose involves the intracellular cycling of KOR1.\\
## Solyc05g006000 & NA & NA\\
## Solyc05g007420 & NA & NA\\
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## Solyc05g010400 & AT5G16000 & NIK1 (NSP-INTERACTING KINASE 1); kinase; similar to leucine-rich repeat family protein / protein kinase family protein [Arabidopsis thaliana] (TAIR:AT2G23950.1); similar to leucine-rich repeat family protein / protein kinase family protein [Arabidopsis thaliana] (TAIR:AT4G30520.1); similar to NIK2 (NSP-INTERACTING KINASE 2), protein kinase [Arabidopsis thaliana] (TAIR:AT3G25560.1); similar to hypothetical protein [Cleome spinosa] (GB:ABD96908.1); similar to leucine-rich repeat receptor-like kinase [Populus tomentosa] (GB:ABG73621.1); similar to hypothetical protein [Cleome spinosa] (GB:ABD96874.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc05g011890 & NA & NA\\
## Solyc05g014260 & NA & NA\\
## Solyc05g049990 & NA & NA\\
## Solyc05g050280 & AT2G46370 & An auxin-induced gene encoding a cytoplasmic localized phytochrome A signaling component protein similar to the GH3 family of proteins Loss of function mutants are defective in a variety of responses to jasmonic acid.\\
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## Solyc05g053120 & NA & NA\\
## Solyc05g053970 & AT3G28960 & amino acid transporter family protein; similar to amino acid transporter family protein [Arabidopsis thaliana] (TAIR:AT5G15240.1); similar to Amino acid/polyamine transporter II [Medicago truncatula] (GB:ABD32531.1); contains InterPro domain Amino acid/polyamine transporter II; (InterPro:IPR002422); contains InterPro domain Amino acid transporter, transmembrane; (InterPro:IPR013057)\\
## Solyc05g054030 & NA & NA\\
## Solyc05g055290 & AT2G36290 & hydrolase, alpha/beta fold family protein; similar to esterase/lipase/thioesterase family protein [Arabidopsis thaliana] (TAIR:AT1G74300.1); similar to Os02g0532300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001047024.1); similar to H0717B12.5 [Oryza sativa (indica cultivar-group)] (GB:CAH67158.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073)\\
## Solyc05g055330 & AT2G36380 & ATPDR6/PDR6 (PLEIOTROPIC DRUG RESISTANCE 6); ATPase, coupled to transmembrane movement of substances; Identical to Pleiotropic drug resistance protein 6 (PDR6) [Arabidopsis Thaliana] (GB:Q7PC87;GB:Q56YS3;GB:Q9SJR6); similar to ATPDR12/PDR12 (PLEIOTROPIC DRUG RESISTANCE 12), ATPase, coupled to transmembrane movement of substances [Arabidopsis thaliana] (TAIR:AT1G15520.1); similar to ATPDR11/PDR11 (PLEIOTROPIC DRUG RESISTANCE 11), ATPase, coupled to transmembrane movement of substances [Arabidopsis thaliana] (TAIR:AT1G66950.1); similar to ATPDR1/PDR1 (PLEIOTROPIC DRUG RESISTANCE 1), ATPase, coupled to transmembrane movement of substances [Arabidopsis thaliana] (TAIR:AT3G16340.1); similar to Pleiotropic drug resistance protein 2 (NpPDR2) (GB:Q2PCF1); similar to PDR-like ABC transporter [Oryza sativa (japonica cultivar-group)] (GB:CAD59574.1); similar to Pleiotropic drug resistance protein 1 (NtPDR1) (GB:Q76CU2); contains InterPro domain ABC-2 type transporter; (InterPro:IPR013525); contains InterPro domain Plant PDR ABC transporter associated; (InterPro:IPR013581); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain ABC transporter related; (InterPro:IPR003439)\\
## \addlinespace
## Solyc06g005700 & NA & NA\\
## Solyc06g008230 & AT4G28600 & encodes a calmodulin-binding protein that is expressed in pollen, suspension culture cells, flowers, and fruits.\\
## Solyc06g009190 & AT4G02320 & pectinesterase family protein; similar to pectinesterase family protein [Arabidopsis thaliana] (TAIR:AT4G02300.1); similar to Os01g0312500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042866.1); similar to putative thermostable pectinesterase [Citrus sinensis] (GB:AAK84485.1); similar to Os07g0675100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060620.1); contains InterPro domain Virulence factor, pectin lyase fold; (InterPro:IPR011050); contains InterPro domain Plant invertase/pectin methylesterase inhibitor; (InterPro:IPR007186); contains InterPro domain Pectinesterase; (InterPro:IPR000070); contains InterPro domain Pectinesterase inhibitor; (InterPro:IPR006501)\\
## Solyc06g009380 & NA & NA\\
## Solyc06g009780 & AT2G47500 & microtubule motor; similar to ATK4 (ARABIDOPSIS THALIANA KINESIN 4), microtubule motor [Arabidopsis thaliana] (TAIR:AT5G27000.1); similar to kinesin motor protein-related [Arabidopsis thaliana] (TAIR:AT3G44730.1); similar to kinesin motor protein-related [Arabidopsis thaliana] (TAIR:AT1G09170.1); similar to Kinesin-4, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF95490.1); similar to Calponin-like actin-binding; Kinesin, motor re (GB:ABE84966.1); similar to kinesin [Gossypium hirsutum] (GB:AAW03152.1); contains InterPro domain Kinesin, motor region; (InterPro:IPR001752); contains InterPro domain Calponin-like actin-binding; (InterPro:IPR001715)\\
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## Solyc06g048570 & AT3G10870 & hydrolase, alpha/beta fold family protein; similar to hydrolase, alpha/beta fold family protein [Arabidopsis thaliana] (TAIR:AT5G58310.1); similar to Os12g0117100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065997.1); similar to Os11g0118000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065594.1); similar to pheophorbidase [Raphanus sativus] (GB:BAE54383.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073)\\
## Solyc06g048930 & AT3G56380 & response regulator 17\\
## Solyc06g049020 & NA & NA\\
## Solyc06g050710 & NA & NA\\
## Solyc06g051260 & NA & NA\\
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## Solyc06g053830 & AT3G23050 & Transcription regulator acting as repressor of auxin-inducible gene expression. Plays role in the control of gravitropic growth and development in light-grown seedlings. Auxin induces the degradation of the protein in a dosage-dependent manner in a process mediated by AtRac1. Auxin induced the relocalization of the protein within the nucleus from a diffused nucleoplasmic pattern to a discrete particulated pattern named nuclear protein bodies or NPB in a process also mediated by Rac1. Colocalizes with SCF, CSN and 26S proteasome components.\\
## Solyc06g061130 & NA & NA\\
## Solyc06g061230 & NA & NA\\
## Solyc06g063280 & NA & NA\\
## Solyc06g065490 & AT3G56650 & thylakoid lumenal 20 kDa protein; similar to thylakoid lumenal 29.8 kDa protein [Arabidopsis thaliana] (TAIR:AT1G77090.1); similar to Os12g0190200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066340.1); similar to Os01g0805300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044559.1); similar to thylakoid lumenal 29.8 kDa protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA96032.2)\\
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## Solyc06g066470 & AT4G32850 & Encodes a nuclear poly(A) polymerase.\\
## Solyc06g066650 & AT1G79860 & Encodes a member of KPP-like gene family, homolog of KPP (kinase partner protein) gene in tomato. Also a member of the RopGEF (guanine nucleotide exchange factor) family, containing the novel PRONE domain (plant-specific Rop nucleotide exchanger), which is exclusively active towards members of the Rop subfamily.\\
## Solyc06g069420 & NA & NA\\
## Solyc06g071540 & AT5G62960 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G10660.1); similar to hypothetical protein MtrDRAFT_AC124952g40v1 [Medicago truncatula] (GB:ABE93571.1)\\
## Solyc06g072770 & AT4G17720 & RNA recognition motif (RRM)-containing protein; similar to RNA recognition motif (RRM)-containing protein [Arabidopsis thaliana] (TAIR:AT5G46870.1); similar to RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) containing protein [Brassica oleracea] (GB:ABD65610.1); similar to RNA recognition motif (RRM)-containing protein [Brassica oleracea] (GB:ABD65158.1); contains InterPro domain Nucleotide-binding, alpha-beta plait; (InterPro:IPR012677); contains InterPro domain RNA-binding region RNP-1 (RNA recognition motif); (InterPro:IPR000504)\\
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## Solyc06g073920 & AT1G08465 & Member of the YABBY family of Arabidopsis proteins involved in the abaxial cell fate specification in lateral organs\\
## Solyc06g074070 & NA & NA\\
## Solyc06g076780 & AT3G47000 & glycosyl hydrolase family 3 protein; similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT3G47050.1); similar to hydrolase, hydrolyzing O-glycosyl compounds [Arabidopsis thaliana] (TAIR:AT3G47010.1); similar to glycosyl hydrolase family 3 protein [Arabidopsis thaliana] (TAIR:AT3G47040.1); similar to putative exohydrolase [Oryza sativa] (GB:AAL58976.1); similar to exo-beta-glucanase [Lilium lon (GB:AAR14129.1); similar to beta-D-glucosidase [Gossypium hirsutum] (GB:AAQ17461.1); contains InterPro domain Glycoside hydrolase, family 3, C-terminal; (InterPro:IPR002772); contains InterPro domain Glycoside hydrolase, family 3, N-terminal; (InterPro:IPR001764)\\
## Solyc06g083500 & AT3G07070 & protein kinase family protein; similar to kinase [Arabidopsis thaliana] (TAIR:AT3G24790.1); similar to Os02g0513000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046943.1); similar to H0718E12.2 [Oryza sativa (indica cultivar-group)] (GB:CAH66458.1); similar to Os01g0936100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045326.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc07g006570 & NA & NA\\
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## Solyc07g008600 & NA & NA\\
## Solyc07g018290 & AT5G57390 & AIL5 (AINTEGUMENTA-LIKE 5); DNA binding / transcription factor; similar to PLT1 (PLETHORA 1), transcription factor [Arabidopsis thaliana] (TAIR:AT3G20840.1); similar to Pathogenesis-related transcriptional factor and ERF [Medicago truncatula] (GB:ABE82188.1); contains InterPro domain Pathogenesis-related transcriptional factor and ERF; (InterPro:IPR001471)\\
## Solyc07g022830 & AT5G35730 & EXS family protein / ERD1/XPR1/SYG1 family protein; similar to EXS family protein / ERD1/XPR1/SYG1 family protein [Arabidopsis thaliana] (TAIR:AT2G32295.1); similar to EXS, C-terminal [Medicago truncatula] (GB:ABD28452.1); similar to EXS family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA99182.2); similar to Os12g0595000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067180.1); contains InterPro domain EXS, C-terminal; (InterPro:IPR004342)\\
## Solyc07g022900 & AT1G45474 & Encodes a component of the light harvesting complex of photosystem I.\\
## Solyc07g042190 & NA & NA\\
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## Solyc07g042900 & AT3G13050 & transporter-related; similar to carbohydrate transporter/ sugar porter [Arabidopsis thaliana] (TAIR:AT3G20660.1); similar to Major facilitator superfamily [Medicago truncatula] (GB:ABE91081.1); contains InterPro domain Major facilitator superfamily; (InterPro:IPR007114); contains InterPro domain Major facilitator superfamily MFS_1; (InterPro:IPR011701)\\
## Solyc07g049300 & AT2G32990 & glycosyl hydrolase family 9 protein; Identical to Endoglucanase 11 precursor (EC 3.2.1.4) (Endo-1,4-beta glucanase 11) [Arabidopsis Thaliana] (GB:O48766); similar to endo-1,4-beta-glucanase, putative / cellulase, putative [Arabidopsis thaliana] (TAIR:AT4G11050.1); similar to endo-1,4-beta-glucanase, putative / cellulase, putative [Arabidopsis thaliana] (TAIR:AT1G64390.1); similar to Endoglucanase 22 precursor (Endo-1,4-beta glucanase 22) (OsGLU11) (GB:Q6H3Z9); similar to Endoglucanase 7 precursor (Endo-1,4-beta glucanase 7) (OsGLU10) (GB:Q6Z5P2); similar to putative endo-1,4-beta-glucanase [Eucalyptus globulus] (GB:AAZ08321.1); contains InterPro domain Six-hairpin glycosidase; (InterPro:IPR008928); contains InterPro domain Glycoside transferase, six-hairpin, subgroup; (InterPro:IPR012343); contains InterPro domain Glycoside hydrolase, family 9; (InterPro:IPR001701)\\
## Solyc07g053600 & AT1G28440 & HSL1 (HAESA-LIKE 1); ATP binding / kinase/ protein serine/threonine kinase; similar to HAESA (RECEPTOR-LIKE PROTEIN KINASE 5), ATP binding / kinase/ protein serine/threonine kinase [Arabidopsis thaliana] (TAIR:AT4G28490.1); similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT1G09970.1); similar to HSL2 (HAESA-LIKE 2), ATP binding / kinase/ protein serine/threonine kinase [Arabidopsis thaliana] (TAIR:AT5G65710.1); similar to leucine-rich repeat receptor-like protein kinase [Pyrus pyrifolia] (GB:AAT28309.1); similar to leucine-rich repeat receptor-like protein kinase [Pyrus pyrifolia] (GB:AAT28308.1); similar to leucine-rich repeat receptor-like protein kinase [Pyrus pyrifolia] (GB:AAT28307.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc07g055870 & AT3G58760 & ankyrin protein kinase, putative; similar to ankyrin protein kinase, putative [Arabidopsis thaliana] (TAIR:AT4G18950.1); similar to flag-tagged protein kinase domain of putative mitogen-activated protein kinase kinase kinase [synthetic construct] (GB:ABK06435.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Ankyrin; (InterPro:IPR002110)\\
## Solyc07g056230 & NA & NA\\
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## Solyc07g063610 & AT4G27360 & dynein light chain, putative; similar to dynein light chain, putative [Arabidopsis thaliana] (TAIR:AT3G16120.1); similar to Os02g0269200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046516.1); similar to Dynein light chain, type 1 [Medicago truncatula] (GB:ABE93207.1); contains InterPro domain Dynein light chain, type 1; (InterPro:IPR001372)\\
## Solyc07g064900 & AT3G20300 & extracellular ligand-gated ion channel; similar to extracellular ligand-gated ion channel [Arabidopsis thaliana] (TAIR:AT1G50630.1); similar to AT3g20300/MQC12_5 [Medicago truncatula] (GB:ABD32643.1); contains InterPro domain Neurotransmitter-gated ion-channel ligand-binding; (InterPro:IPR006202)\\
## Solyc07g065980 & AT1G55740 & ATSIP1 (ARABIDOPSIS THALIANA SEED IMBIBITION 1); hydrolase, hydrolyzing O-glycosyl compounds; Identical to Probable glycosyltransferase At1g55740 (EC 2.4.1.-) [Arabidopsis Thaliana] (GB:Q84VX0;GB:Q9LFZ7); similar to ATSIP2 (ARABIDOPSIS THALIANA SEED IMBIBITION 2), hydrolase, hydrolyzing O-glycosyl compounds [Arabidopsis thaliana] (TAIR:AT3G57520.1); similar to DIN10 (DARK INDUCIBLE 10), hydrolase, hydrolyzing O-glycosyl compounds [Arabidopsis thaliana] (TAIR:AT5G20250.3); similar to alkaline alpha galactosidase I [Cucumis sativus] (GB:AAZ81424.2); similar to alkaline alpha galactosidase I [Cucumis melo] (GB:AAM75139.1); similar to alkaline alpha-galactosidase seed imbibition protein [Lycopersicon esculentum] (GB:AAN32954.1); contains InterPro domain Glycoside hydrolase, clan GH-D; (InterPro:IPR000111); contains InterPro domain Raffinose synthase; (InterPro:IPR008811)\\
## Solyc08g006110 & NA & NA\\
## Solyc08g006350 & NA & NA\\
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## Solyc08g007040 & AT2G35370 & Encodes glycine decarboxylase complex H protein. Involved in photorespiration.\\
## Solyc08g007470 & NA & NA\\
## Solyc08g007570 & NA & NA\\
## Solyc08g007630 & NA & NA\\
## Solyc08g008300 & NA & NA\\
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## Solyc08g014370 & NA & NA\\
## Solyc08g061970 & AT5G19530 & Encodes a spermine synthase. Required for internode elongation and vascular development, specifically in the mechanism that defines the boundaries between veins and nonvein regions. This mechanism may be mediated by polar auxin transport. Though ACL5 has been shown to function as a spermine synthase in E. coli, an ACL5 knockout has no effect on the endogenous levels of free and conjugated polyamines in Arabidopsis, suggesting that ACL5 may have a very specific or altogether different in vivo function.\\
## Solyc08g065410 & AT2G26040 & Bet v I allergen family protein; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G73000.1); similar to Os06g0562200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057874.1); similar to Bet v I allergen-like [Oryza sativa (japonica cultivar-group)] (GB:BAD25659.1); contains InterPro domain Bet v I allergen; (InterPro:IPR000916)\\
## Solyc08g065610 & AT4G32940 & Encodes a vacuolar processing enzyme belonging to a novel group of cysteine proteinases that is expressed in vegetative organs and is upregulated in association with various types of cell death and under stressed conditions. They are essential in processing seed storage proteins and for mediating the susceptible response of toxin-induced cell death.\\
## Solyc08g066660 & AT5G11590 & encodes a member of the DREB subfamily A-4 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 17 members in this subfamily including TINY.\\
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## Solyc08g067300 & NA & NA\\
## Solyc08g067370 & NA & NA\\
## Solyc08g068090 & AT4G32690 & Encodes a hemoglobin (Hb) with a central domain similar to the 'truncated Hbs of bacteria, protozoa and fungi. The 3D structure of these types of Hbs is a 2-on-2 arrangement of alpha-helices as opposed to the 3-on-3 arrangement of the standard globin fold. This type of Hb is not found in animals or yeast.\\
## Solyc08g068160 & AT5G25620 & YUC6 (YUCCA6); monooxygenase; similar to YUC2 (YUCCA2), monooxygenase/ oxidoreductase [Arabidopsis thaliana] (TAIR:AT4G13260.1); similar to Pyridine nucleotide-disulphide oxidoreductase, class I; FAD-dependent pyridine nucleotide-disulphide oxidoreductase [Medicago truncatula] (GB:ABE83417.1); contains InterPro domain NAD-binding site; (InterPro:IPR000205); contains InterPro domain Monooxygenase, FAD-binding; (InterPro:IPR002938); contains InterPro domain Pyridine nucleotide-disulphide oxidoreductase, class-II; (InterPro:IPR000103); contains InterPro domain FAD-dependent pyridine nucleotide-disulphide oxidoreductase; (InterPro:IPR013027)\\
## Solyc08g068700 & NA & NA\\
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## Solyc08g075710 & AT1G31830 & amino acid permease family protein; similar to amino acid permease family protein [Arabidopsis thaliana] (TAIR:AT1G31820.1); similar to amino acid permease family protein [Arabidopsis thaliana] (TAIR:AT5G05630.1); similar to putative amino acid permease [Oryza sativa (japonica cultivar-group)] (GB:AAR10855.1); similar to amino acid permease family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97257.1); similar to Os03g0576900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050538.1); contains InterPro domain Amino acid permease-associated region; (InterPro:IPR004841); contains InterPro domain Amino acid/polyamine transporter I; (InterPro:IPR002293)\\
## Solyc08g077210 & AT4G18010 & inositol polyphosphate 5-phosphatase II (IP5PII) mRNA,\\
## Solyc08g077510 & AT4G17100 & serine protease protein -related, expressed pseudogene, blastp match of 64% identity and 1.9e-114 P-value to GP|29367523|gb|AAO72617.1||AY224498 putative serine protease-like protein {Oryza sativa (japonica cultivar-group)}\\
## Solyc08g077820 & NA & NA\\
## Solyc08g078020 & NA & NA\\
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## Solyc08g078940 & NA & NA\\
## Solyc08g079570 & AT4G12110 & Encodes a member of the SMO1 family of sterol 4alpha-methyl oxidases. More specifically functions as a 4,4-dimethyl-9beta,19-cyclopropylsterol-4alpha- methyl oxidase.\\
## Solyc08g082400 & AT4G23890 & similar to Os07g0196200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059119.1); similar to conserved hypothetical protein [Medicago truncatula] (GB:ABD28447.1)\\
## Solyc09g005880 & NA & NA\\
## Solyc09g007760 & AT3G53420 & a member of the plasma membrane intrinsic protein subfamily PIP2. localizes to the plasma membrane and exhibits water transport activity in Xenopus oocyte. expressed specifically in the vascular bundles and protein level increases slightly during leaf dev\\
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## Solyc09g008860 & AT2G36570 & leucine-rich repeat transmembrane protein kinase, putative; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT1G68400.1); similar to putative receptor kinase [Malus x domestica] (GB:ABA82081.1); similar to Protein kinase [Medicago truncatula] (GB:ABE80124.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc09g011380 & NA & NA\\
## Solyc09g011580 & NA & NA\\
## Solyc09g048980 & AT3G08570 & phototropic-responsive protein, putative; similar to phototropic-responsive protein, putative [Arabidopsis thaliana] (TAIR:AT3G08660.1); similar to transposon protein, putative, Mutator sub-class, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA91176.1); contains InterPro domain NPH3; (InterPro:IPR004249); contains InterPro domain BTB; (InterPro:IPR000210); contains InterPro domain BTB/POZ; (InterPro:IPR013069)\\
## Solyc09g055900 & AT3G22400 & lipoxygenase, putative; similar to LOX3 (Lipoxygenase 3), iron ion binding / lipoxygenase [Arabidopsis thaliana] (TAIR:AT1G17420.1); similar to LOX1 (Lipoxygenase 1), lipoxygenase [Arabidopsis thaliana] (TAIR:AT1G55020.1); similar to lipoxygenase, putative [Arabidopsis thaliana] (TAIR:AT1G72520.1); similar to lipoxygenase [Fragaria x ananassa] (GB:CAE17327.1); similar to lipoxygenase [Corylus avellana] (GB:CAD10740.1); similar to lipoxygenase-9 [Cucumis sativus] (GB:CAB83038.1); contains InterPro domain Lipoxygenase, LH2; (InterPro:IPR001024); contains InterPro domain Plant lipoxygenase; (InterPro:IPR001246); contains InterPro domain Lipase/lipooxygenase, PLAT/LH2; (InterPro:IPR008976); contains InterPro domain Lipoxygenase; (InterPro:IPR000907)\\
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## Solyc09g059550 & NA & NA\\
## Solyc09g060110 & AT5G48740 & leucine-rich repeat family protein / protein kinase family protein; similar to leucine-rich repeat family protein / protein kinase family protein [Arabidopsis thaliana] (TAIR:AT1G67720.1); similar to Protein kinase; Hydroxymethylglutaryl-coenzyme A reductase [Medicago truncatula] (GB:ABE88840.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, typical subtype; (InterPro:IPR003591); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc09g064610 & NA & NA\\
## Solyc09g065560 & AT3G51895 & Encodes a sulfate transporter.\\
## Solyc09g065760 & NA & NA\\
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## Solyc09g090910 & AT2G33310 & Auxin induced gene, IAA13 (IAA13).\\
## Solyc09g097770 & NA & NA\\
## Solyc10g005500 & AT1G16310 & cation efflux family protein; similar to cation efflux family protein [Arabidopsis thaliana] (TAIR:AT1G79520.1); similar to cation diffusion facilitator 9 [Stylosanthes hamata] (GB:AAO38708.1); contains InterPro domain Cation efflux protein; (InterPro:IPR002524)\\
## Solyc10g006800 & AT5G54250 & member of Cyclic nucleotide gated channel family, downstream component of the signaling pathways leading to HR resistance. mutant plants exhibit gene-for-gene disease resistance against avirulent Pseudomonas syringae despite the near-complete absence of the hypersensitive response (HR). Salicylic acid accumulation in dnd2 mutants is completely PAD4-independent.\\
## Solyc10g007030 & AT1G53035 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G15358.1); similar to unknown [Musa acuminata] (GB:ABC41688.1)\\
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## Solyc10g007600 & AT3G14420 & (S)-2-hydroxy-acid oxidase, peroxisomal, putative / glycolate oxidase, putative / short chain alpha-hydroxy acid oxidase, putative; Identical to Probable peroxisomal (S)-2-hydroxy-acid oxidase 2 (EC 1.1.3.15) (Glycolate oxidase 2) (GOX 2) (Short chain alpha-hydroxy acid oxidase 2) [Arabidopsis Thaliana] (GB:Q9LRR9;GB:Q8VZA4;GB:Q944K6); similar to (S)-2-hydroxy-acid oxidase, peroxisomal, putative / glycolate oxidase, putative / short chain alpha-hydroxy acid oxidase, putative [Arabidopsis thaliana] (TAIR:AT3G14415.1); similar to (S)-2-hydroxy-acid oxidase (EC 1.1.3.15) - cucurbit (GB:T10242); similar to glycolate oxidase [Mesembryanthemum crystallinum] (GB:AAB40396.1); similar to glycolate oxidase [Brassica napus] (GB:AAV28535.1); contains InterPro domain FMN/related compound-binding core; (InterPro:IPR003009); contains InterPro domain FMN-dependent alpha-hydroxy acid dehydrogenase; (InterPro:IPR000262); contains InterPro domain FMN-dependent alpha-hydroxy acid dehydrogenase, active site; (InterPro:IPR008259)\\
## Solyc10g009360 & NA & NA\\
## Solyc10g045240 & AT2G44480 & glycosyl hydrolase family 1 protein; similar to glycosyl hydrolase family 1 protein [Arabidopsis thaliana] (TAIR:AT2G44450.1); similar to Glycoside hydrolase, family 1 [Medicago truncatula] (GB:ABE86373.1); contains InterPro domain 6-phospho-beta-galactosidase, eukaryotic; (InterPro:IPR011580); contains InterPro domain Glycoside hydrolase, family 1; (InterPro:IPR001360)\\
## Solyc10g054420 & NA & NA\\
## Solyc10g055240 & AT4G38690 & 1-phosphatidylinositol phosphodiesterase-related; similar to 1-phosphatidylinositol phosphodiesterase-related [Arabidopsis thaliana] (TAIR:AT4G34920.1); similar to Ki1 protein [Beta vulgaris] (GB:AAO92349.1); contains InterPro domain Phosphatidylinositol-specific phospholipase C, X region; (InterPro:IPR000909)\\
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## Solyc10g074810 & AT5G01960 & zinc finger (C3HC4-type RING finger) family protein; similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G65040.3); similar to Os05g0316000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055172.1); similar to Os01g0168400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042129.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:AAV32165.1); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc10g076730 & AT2G01610 & invertase/pectin methylesterase inhibitor family protein; similar to invertase/pectin methylesterase inhibitor family protein [Arabidopsis thaliana] (TAIR:AT1G14890.1); similar to pectin methylesterase inhibitor isoform [Solanum phureja] (GB:ABG49144.1); contains InterPro domain Plant invertase/pectin methylesterase inhibitor; (InterPro:IPR007186); contains InterPro domain Pectinesterase inhibitor; (InterPro:IPR006501)\\
## Solyc10g078230 & AT2G40890 & encodes coumarate 3-hydroxylase (C3H), a P450-dependent monooxygenase. Involved in lignin biosynthesis and flavonoid biosynthesis. Also affects the biosynthesis of coumarins such as scopoletin and scopolin as a branching-out-pathway from the phenylpropanoid acid level.\\
## Solyc10g078530 & NA & NA\\
## Solyc10g078590 & NA & NA\\
## \addlinespace
## Solyc10g084560 & NA & NA\\
## Solyc10g086250 & NA & NA\\
## Solyc10g086480 & AT3G09410 & pectinacetylesterase family protein; similar to pectinacetylesterase family protein [Arabidopsis thaliana] (TAIR:AT5G23870.1); similar to Pectinacetylesterase [Medicago truncatula] (GB:ABD33181.1); similar to Os01g0974500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045555.1); contains InterPro domain Pectinacetylesterase; (InterPro:IPR004963)\\
## Solyc11g005190 & AT5G23730 & nucleotide binding; similar to transducin family protein / WD-40 repeat family protein [Arabidopsis thaliana] (TAIR:AT5G52250.1); similar to putative COP1 [Oryza sativa (japonica cultivar-group)] (GB:BAD07933.1); contains InterPro domain WD-40 repeat; (InterPro:IPR001680); contains InterPro domain WD40-like; (InterPro:IPR011046)\\
## Solyc11g005660 & AT1G49180 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT2G37840.1); similar to Protein kinase [Medicago truncatula] (GB:ABE81183.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Polynucleotidyl transferase, Ribonuclease H fold; (InterPro:IPR012337)\\
## \addlinespace
## Solyc11g007200 & NA & NA\\
## Solyc11g012320 & NA & NA\\
## Solyc11g012360 & AT5G47560 & Encodes a tonoplast malate/fumarate transporter.\\
## Solyc11g012680 & NA & NA\\
## Solyc11g066000 & NA & NA\\
## \addlinespace
## Solyc11g066520 & AT2G27920 & SCPL51; serine carboxypeptidase; similar to SCPL48 (serine carboxypeptidase-like 48), serine carboxypeptidase [Arabidopsis thaliana] (TAIR:AT3G45010.1); similar to Serine carboxypeptidase family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF96395.1); contains InterPro domain Peptidase S10, serine carboxypeptidase; (InterPro:IPR001563)\\
## Solyc11g066950 & AT5G22580 & Identical to Protein At5g22580 [Arabidopsis Thaliana] (GB:Q9FK81); similar to stable protein 1-related [Arabidopsis thaliana] (TAIR:AT3G17210.1); similar to hypothetical protein [Cucumis melo] (GB:BAD93607.1); contains InterPro domain Stress responsive alpha-beta barrel; (InterPro:IPR013097); contains InterPro domain Dimeric alpha-beta barrel; (InterPro:IPR011008)\\
## Solyc11g068950 & NA & NA\\
## Solyc11g069990 & NA & NA\\
## Solyc11g071290 & NA & NA\\
## \addlinespace
## Solyc11g072120 & NA & NA\\
## Solyc11g072710 & AT3G45780 & Blue-light photoreceptor. Contains a light activated serine-threonine kinase domain and LOV1 and LOV2 repeats. Mutants are defective in blue-light response. Mediates blue light-induced growth enhancements. PHOT1 and PHOT2 mediate blue light-dependent activation of the plasma membrane H+-ATPase in guard cell protoplasts.\\
## Solyc12g005430 & NA & NA\\
## Solyc12g008650 & AT4G26260 & Encodes a myo-inositol oxygenase.\\
## Solyc12g009110 & AT4G35160 & O-methyltransferase family 2 protein; similar to O-methyltransferase family 2 protein [Arabidopsis thaliana] (TAIR:AT4G35150.1); similar to O-methyltransferase, family 2 [Medicago truncatula] (GB:ABE89160.1); contains InterPro domain SAM (and some other nucleotide) binding motif; (InterPro:IPR000051); contains InterPro domain O-methyltransferase, family 2; (InterPro:IPR001077); contains InterPro domain Dimerisation; (InterPro:IPR012967); contains InterPro domain Generic methyltransferase; (InterPro:IPR001601); contains InterPro domain Winged helix repressor DNA-binding; (InterPro:IPR011991)\\
## \addlinespace
## Solyc12g011040 & AT3G45140 & Chloroplast lipoxygenase required for wound-induced jasmonic acid accumulation in Arabidopsis.Mutants are resistant to Staphylococcus aureus and accumulate salicylic acid upon infection.\\
## Solyc12g015690 & NA & NA\\
## Solyc12g036500 & NA & NA\\
## Solyc12g042240 & AT2G02040 & Encodes a peptide transport gene that mediates the transport of di- and tripeptides.\\
## Solyc12g044330 & AT3G16240 & Delta tonoplast intrinsic protein, functions as a water channel and ammonium (NH3) transporter. Highly expressed in flower, shoot, and stem. Expression shows diurnal regulation and is induced by ammonium (NH3). Protein localized to vacuolar membrane.\\
## \addlinespace
## Solyc12g056510 & NA & NA\\
## Solyc12g056600 & AT1G52340 & Encodes a cytosolic short-chain dehydrogenase/reductase involved in the conversion of xanthoxin to ABA-aldehyde during ABA biosynthesis. Mutants are insensitive to sucrose and glucose.\\
## Solyc12g100180 & AT1G15520 & ABC transporter family involved in resistant to lead. Localizes to plasma membrane. Upregulated by lead. Expressed in leaves, flowers. Not expressed in roots.\\
## \bottomrule
## \end{tabular}Cluster 33
Solyc01g080770 & AT4G20270 & Encodes a CLAVATA1-related receptor kinase-like protein required for both shoot and flower meristem function. It has a broad expression pattern and is involved in vascular strand development in the leaf, control of leaf shape, size and symmetry, male gametophyte development and ovule specification and function.
Aothoer and Bother up-regulated compared to mbr. Very Similar to Cluster 34.
clusterVis(33)## Using gene as id variables
clusterVis_PCA(33)
clusterVis_line(33)## Using gene, curated as id variables
#clusterGO(33)
y <- genesInClust(33, data.val2, annotation) ## [1] 202kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g072100 & NA & NA\\
## Solyc01g005640 & NA & NA\\
## Solyc01g009110 & AT4G33470 & HDA14 (histone deacetylase 14); histone deacetylase; similar to HDA15 (histone deacetylase 15), histone deacetylase [Arabidopsis thaliana] (TAIR:AT3G18520.2); similar to Os12g0182700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066322.1); similar to Histone deacetylase complex, catalytic component RPD3 (ISS) [Ostreococcus tauri] (GB:CAL55176.1); contains InterPro domain Histone deacetylase superfamily; (InterPro:IPR000286)\\
## Solyc01g010200 & NA & NA\\
## Solyc01g010250 & AT1G13700 & glucosamine/galactosamine-6-phosphate isomerase family protein; similar to EMB2024 (EMBRYO DEFECTIVE 2024), catalytic [Arabidopsis thaliana] (TAIR:AT5G24400.1); similar to putative 6-phosphogluconolactonase [Oryza sativa (japonica cultivar-group)] (GB:BAC83870.1); contains InterPro domain 6-phosphogluconolactonase; (InterPro:IPR005900); contains InterPro domain Glucosamine/galactosamine-6-phosphate isomerase; (InterPro:IPR006148)\\
## \addlinespace
## Solyc01g047590 & AT1G67680 & binding; similar to binding [Arabidopsis thaliana] (TAIR:AT1G67650.1); similar to Os01g0889000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045044.1); similar to signal recognition particle 72kDa [Gallus gallus] (GB:NP_001006449.1); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain SRP72 RNA-binding; (InterPro:IPR013699); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## Solyc01g065500 & AT5G17980 & C2 domain-containing protein; similar to C2 domain-containing protein [Arabidopsis thaliana] (TAIR:AT3G03680.1); similar to NTRB (NADPH-dependent thioredoxin reductase B) [Arabidopsis thaliana] (TAIR:AT4G11610.1); similar to C2 domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G74720.1); similar to putative phosphoribosyltransferase [Oryza sativa (japonica cultivar-group)] (GB:BAB89913.1); similar to putative phosphoribosyltransferase [Oryza sativa (japonica cultivar-group)] (GB:AAP68393.1); similar to putative anthranilate phosphoribosyltransferase [Oryza sativa (japonica cultivar-group)] (GB:BAC79748.1); contains InterPro domain C2; (InterPro:IPR000008); contains InterPro domain Phosphoribosyltransferase C-terminal, plant; (InterPro:IPR013583); contains InterPro domain C2 calcium/lipid-binding region, CaLB; (InterPro:IPR008973)\\
## Solyc01g065550 & AT3G06760 & similar to HRB1 (HYPERSENSITIVE TO RED AND BLUE) [Arabidopsis thaliana] (TAIR:AT5G49230.1); similar to fiber protein Fb2 [Gossypium barbadense] (GB:AAN77145.1); contains InterPro domain Drought induced 19; (InterPro:IPR008598)\\
## Solyc01g068460 & NA & NA\\
## Solyc01g079950 & NA & NA\\
## \addlinespace
## Solyc01g080200 & AT3G23590 & similar to structural constituent of ribosome [Arabidopsis thaliana] (TAIR:AT2G48110.1); similar to Os07g0681500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060654.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAC80015.1)\\
## Solyc01g080770 & AT4G20270 & Encodes a CLAVATA1-related receptor kinase-like protein required for both shoot and flower meristem function. It has a broad expression pattern and is involved in vascular strand development in the leaf, control of leaf shape, size and symmetry, male gametophyte development and ovule specification and function.\\
## Solyc01g087750 & AT5G12470 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G40400.2); similar to Trimeric LpxA-like [Medicago truncatula] (GB:ABE84885.1); similar to Os01g0957200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045446.1); similar to Os05g0388600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055430.1)\\
## Solyc01g090970 & AT4G00165 & protease inhibitor/seed storage/lipid transfer protein (LTP) family protein; similar to protease inhibitor/seed storage/lipid transfer protein (LTP) family protein [Arabidopsis thaliana] (TAIR:AT2G45180.1); similar to Plant lipid transfer/seed storage/trypsin-alpha amylase inhibitor [Medicago truncatula] (GB:ABE84488.1); contains InterPro domain Plant lipid transfer/seed storage/trypsin-alpha amylase inhibitor; (InterPro:IPR003612)\\
## Solyc01g091920 & AT1G01900 & subtilase family protein; similar to subtilase family protein [Arabidopsis thaliana] (TAIR:AT5G51750.1); similar to ARA12, subtilase [Arabidopsis thaliana] (TAIR:AT5G67360.1); similar to Orn/DAP/Arg decarboxylase 2; Protease-associated PA; Proteinase inhibitor I9, subtilisin propeptide [Medicago truncatula] (GB:ABE87035.1); similar to OSIGBa0147H17.8 [Oryza sativa (indica cultivar-group)] (GB:CAH66960.1); contains InterPro domain Protease-associated PA; (InterPro:IPR003137); contains InterPro domain Peptidase S8 and S53, subtilisin, kexin, sedolisin; (InterPro:IPR000209); contains InterPro domain Proteinase inhibitor I9, subtilisin propeptide; (InterPro:IPR010259); contains InterPro domain Proteinase inhibitor, propeptide; (InterPro:IPR009020)\\
## \addlinespace
## Solyc01g094790 & AT3G61440 & Encodes a cysteine synthase isomer AtcysC1. The isomer is however less effective in cysteine biosynthesis. It is involved in beta-cyanoalanine biosynthesis, an intermediate of cyanide detoxification pathway.\\
## Solyc01g095070 & NA & NA\\
## Solyc01g096120 & NA & NA\\
## Solyc01g098500 & AT1G54730 & sugar transporter, putative; Identical to Sugar transporter ERD6-like 5 [Arabidopsis Thaliana] (GB:Q3ECP7;GB:Q8H197;GB:Q940K3;GB:Q9ZVM0); similar to sugar transporter, putative [Arabidopsis thaliana] (TAIR:AT2G48020.1); similar to putative sugar transporter [Solanum lycopersicum] (GB:CAC00697.2); contains InterPro domain Sugar transporter; (InterPro:IPR003663); contains InterPro domain Major facilitator superfamily; (InterPro:IPR007114); contains InterPro domain Major facilitator superfamily MFS_1; (InterPro:IPR011701)\\
## Solyc01g098560 & AT1G54730 & sugar transporter, putative; Identical to Sugar transporter ERD6-like 5 [Arabidopsis Thaliana] (GB:Q3ECP7;GB:Q8H197;GB:Q940K3;GB:Q9ZVM0); similar to sugar transporter, putative [Arabidopsis thaliana] (TAIR:AT2G48020.1); similar to putative sugar transporter [Solanum lycopersicum] (GB:CAC00697.2); contains InterPro domain Sugar transporter; (InterPro:IPR003663); contains InterPro domain Major facilitator superfamily; (InterPro:IPR007114); contains InterPro domain Major facilitator superfamily MFS_1; (InterPro:IPR011701)\\
## \addlinespace
## Solyc01g098930 & NA & NA\\
## Solyc01g100170 & AT3G05710 & member of SYP4 Gene Family\\
## Solyc01g102390 & AT1G09560 & germin-like protein (GLP5)\\
## Solyc01g108630 & AT2G15620 & involved in the second step of nitrate assimilation\\
## Solyc01g109500 & NA & NA\\
## \addlinespace
## Solyc01g109700 & NA & NA\\
## Solyc01g111380 & AT2G16700 & Encodes actin depolymerizing factor 5 (ADF5).\\
## Solyc01g111840 & NA & NA\\
## Solyc01g112260 & NA & NA\\
## Solyc02g062140 & AT5G66200 & armadillo/beta-catenin repeat family protein; similar to armadillo/beta-catenin repeat family protein [Arabidopsis thaliana] (TAIR:AT4G36030.1); similar to armadillo/beta-catenin repeat family protein [Arabidopsis thaliana] (TAIR:AT4G34940.1); similar to IMP dehydrogenase/GMP reductase [Medicago truncatula] (GB:ABE92291.1); similar to Armadillo [Medicago truncatula] (GB:ABE77933.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAD34223.1); contains InterPro domain Armadillo; (InterPro:IPR000225); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989)\\
## \addlinespace
## Solyc02g062340 & AT4G38970 & fructose-bisphosphate aldolase, putative; similar to fructose-bisphosphate aldolase [Arabidopsis thaliana] (TAIR:AT2G21330.2); similar to chloroplast latex aldolase-like protein [Manihot esculenta] (GB:AAV74407.1); contains InterPro domain Fructose-bisphosphate aldolase, class-I; (InterPro:IPR000741)\\
## Solyc02g064650 & NA & NA\\
## Solyc02g064740 & AT4G37480 & DNAJ heat shock N-terminal domain-containing protein; similar to DNAJ heat shock family protein [Arabidopsis thaliana] (TAIR:AT3G17830.1); similar to Heat shock protein DnaJ, N-terminal [Medicago truncatula] (GB:ABE85762.1); contains InterPro domain Heat shock protein DnaJ, N-terminal; (InterPro:IPR001623)\\
## Solyc02g067250 & AT5G15260 & structural constituent of ribosome; similar to structural constituent of ribosome [Arabidopsis thaliana] (TAIR:AT3G01170.1); similar to AT5g15260/F8M21_150 [Medicago truncatula] (GB:ABE80371.1); contains InterPro domain Ribosomal protein L34e; (InterPro:IPR008195)\\
## Solyc02g069690 & AT2G34790 & EDA28/MEE23 (embryo sac development arrest 28, maternal effect embryo arrest 23); electron carrier; similar to FAD-binding domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G44390.1); similar to FAD-binding domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G30760.1); similar to FAD-binding domain-containing protein [Arabidopsis thaliana] (TAIR:AT5G44400.1); similar to Berberine and berberine like, putative [Medicago truncatula] (GB:ABE90048.1); contains InterPro domain FAD linked oxidase, N-terminal; (InterPro:IPR006094); contains InterPro domain Berberine/berberine-like; (InterPro:IPR012951)\\
## \addlinespace
## Solyc02g070980 & AT1G29930 & Subunit of light-harvesting complex II (LHCII),which absorbs light and transfers energy to the photosynthetic reaction center.\\
## Solyc02g070990 & AT2G34430 & Photosystem II type I chlorophyll a/b-binding protein\\
## Solyc02g071110 & NA & NA\\
## Solyc02g076690 & NA & NA\\
## Solyc02g076930 & AT2G27430 & binding; similar to armadillo/beta-catenin repeat family protein [Arabidopsis thaliana] (TAIR:AT4G31890.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAT69578.1); contains InterPro domain Armadillo-like helical; (InterPro:IPR011989)\\
## \addlinespace
## Solyc02g077880 & AT1G28330 & dormancy-associated protein (DRM1)\\
## Solyc02g078150 & NA & NA\\
## Solyc02g083520 & NA & NA\\
## Solyc02g084870 & AT2G18170 & ATMPK7 (MAP KINASE 7); MAP kinase/ kinase; Identical to Mitogen-activated protein kinase 7 (EC 2.7.11.24) (MAP kinase 7) (AtMPK7) (MPK7) [Arabidopsis Thaliana] (GB:Q39027;GB:Q56W33;GB:Q9SI14); similar to ATMPK14 (Arabidopsis thaliana MAP kinase 15), MAP kinase/ kinase [Arabidopsis thaliana] (TAIR:AT4G36450.1); similar to ATMPK1 (MITOGEN-ACTIVATED PROTEIN KINASE 1), MAP kinase/ kinase [Arabidopsis thaliana] (TAIR:AT1G10210.2); similar to double HA-tagged mitogen activated protein kinase 14 [synthetic construct] (GB:ABG54341.1); similar to double HA-tagged mitogen activated protein kinase 7 [synthetic construct] (GB:ABG54334.1); similar to putative mitogen-activated protein kinase MAPK [Prunus armeniaca] (GB:AAD32204.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain MAP kinase; (InterPro:IPR003527)\\
## Solyc02g085950 & AT5G38410 & ribulose bisphosphate carboxylase small chain 3B / RuBisCO small subunit 3B (RBCS-3B) (ATS3B); Identical to Ribulose bisphosphate carboxylase small chain 3B, chloroplast precursor (EC 4.1.1.39) (RuBisCO small subunit 3B) (RBCS-3B) [Arabidopsis Thaliana] (GB:P10798;GB:Q9FF21); similar to ribulose bisphosphate carboxylase small chain 2B / RuBisCO small subunit 2B (RBCS-2B) (ATS2B) [Arabidopsis thaliana] (TAIR:AT5G38420.1); similar to ribulose bisphosphate carboxylase small chain 1B / RuBisCO small subunit 1B (RBCS-1B) (ATS1B) [Arabidopsis thaliana] (TAIR:AT5G38430.1); similar to Ribulose bisphosphate carboxylase small chain, chloroplast precursor (RuBisCO small subunit) (GB:P08135); contains InterPro domain Ribulose bisphosphate carboxylase, small chain; (InterPro:IPR000894)\\
## \addlinespace
## Solyc02g088480 & NA & NA\\
## Solyc02g088680 & NA & NA\\
## Solyc02g089550 & AT5G16000 & NIK1 (NSP-INTERACTING KINASE 1); kinase; similar to leucine-rich repeat family protein / protein kinase family protein [Arabidopsis thaliana] (TAIR:AT2G23950.1); similar to leucine-rich repeat family protein / protein kinase family protein [Arabidopsis thaliana] (TAIR:AT4G30520.1); similar to NIK2 (NSP-INTERACTING KINASE 2), protein kinase [Arabidopsis thaliana] (TAIR:AT3G25560.1); similar to hypothetical protein [Cleome spinosa] (GB:ABD96908.1); similar to leucine-rich repeat receptor-like kinase [Populus tomentosa] (GB:ABG73621.1); similar to hypothetical protein [Cleome spinosa] (GB:ABD96874.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc02g090310 & NA & NA\\
## Solyc02g094190 & AT3G01930 & nodulin family protein; similar to nodulin family protein [Arabidopsis thaliana] (TAIR:AT5G14120.1); similar to nodulin-like protein [Poncirus trifoliata] (GB:AAN62343.1); similar to Os08g0532400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062339.1); similar to Os04g0388700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052632.1); contains InterPro domain Nodulin-like; (InterPro:IPR010658)\\
## \addlinespace
## Solyc02g094400 & AT3G02040 & SRG3 (SENESCENCE-RELATED GENE 3); glycerophosphodiester phosphodiesterase; similar to glycerophosphoryl diester phosphodiesterase family protein [Arabidopsis thaliana] (TAIR:AT5G41080.1); similar to glycerophosphoryl diester phosphodisterase [Oryza sativa (japonica cultivar-group)] (GB:ABB90904.1); contains InterPro domain Glycerophosphoryl diester phosphodiesterase; (InterPro:IPR004129)\\
## Solyc03g013240 & AT3G01060 & similar to unknown [Brassica rapa] (GB:ABC41272.1)\\
## Solyc03g019790 & AT5G08370 & ATAGAL2 (ARABIDOPSIS THALIANA ALPHA-GALACTOSIDASE 2); alpha-galactosidase; similar to ATAGAL1 (ARABIDOPSIS THALIANA ALPHA-GALACTOSIDASE 1), alpha-galactosidase [Arabidopsis thaliana] (TAIR:AT5G08380.1); similar to acid alpha galactosidase 2 [Cucumis sativus] (GB:ABC88435.1); contains InterPro domain Glycoside hydrolase, family 27; (InterPro:IPR002241); contains InterPro domain Glycoside hydrolase, clan GH-D; (InterPro:IPR000111)\\
## Solyc03g031890 & NA & NA\\
## Solyc03g079910 & AT2G39830 & zinc ion binding; similar to ubiquitin interaction motif-containing protein / LIM domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G19270.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAP06895.1); similar to Os03g0267800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049668.1); contains InterPro domain LIM, zinc-binding; (InterPro:IPR001781)\\
## \addlinespace
## Solyc03g096290 & AT4G00430 & a member of the plasma membrane intrinsic protein subfamily PIP1.\\
## Solyc03g097430 & NA & NA\\
## Solyc03g098020 & AT1G73480 & hydrolase, alpha/beta fold family protein; similar to hydrolase, alpha/beta fold family protein [Arabidopsis thaliana] (TAIR:AT1G18360.1); similar to Os09g0394700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063095.1); similar to Os03g0719400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051094.1); similar to putative monoglyceride lipase [Oryza sativa (japonica cultivar-group)] (GB:BAD26447.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase fold-1; (InterPro:IPR000073); contains InterPro domain Alpha/beta hydrolase; (InterPro:IPR003089)\\
## Solyc03g098190 & AT3G17730 & ANAC057 (Arabidopsis NAC domain containing protein 57); transcription factor; similar to ANAC028 (Arabidopsis NAC domain containing protein 28), transcription factor [Arabidopsis thaliana] (TAIR:AT1G65910.1); similar to Os09g0552900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063877.1); similar to Hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAO15294.1); contains InterPro domain No apical meristem (NAM) protein; (InterPro:IPR003441)\\
## Solyc03g098300 & NA & NA\\
## \addlinespace
## Solyc03g112620 & AT5G50150 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G70550.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G10750.1); similar to putative carboxyl-terminal proteinase [Gossypium hirsutum] (GB:AAK84952.2); contains InterPro domain Protein of unknown function DUF239, plant; (InterPro:IPR004314)\\
## Solyc03g113270 & NA & NA\\
## Solyc03g113280 & NA & NA\\
## Solyc03g114290 & NA & NA\\
## Solyc03g114800 & NA & NA\\
## \addlinespace
## Solyc03g115890 & AT2G03090 & member of Alpha-Expansin Gene Family. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio). Involved in the formation of nematode-induced syncytia in roots of Arabidopsis thaliana.\\
## Solyc03g116870 & AT1G15980 & similar to Os08g0276100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061432.1); similar to COG0859: ADP-heptose:LPS heptosyltransferase [Nostoc punctiforme PCC 73102] (GB:ZP_00111141.1); contains domain UDP-Glycosyltransferase/glycogen phosphorylase (SSF53756)\\
## Solyc03g119060 & AT1G73680 & pathogen-responsive alpha-dioxygenase, putative; similar to ALPHA-DOX1 (ALPHA-DIOXYGENASE 1) [Arabidopsis thaliana] (TAIR:AT3G01420.1); similar to TPA: TPA_exp: alpha-dioxygenase 3 [Lycopersicon esculentum] (GB:DAA01542.1); similar to alpha-dioxygenase 2 [Solanum lycopersicum] (GB:CAH64542.1); similar to alpha-DOX2 [Lycopersicon esculentum] (GB:AAR05647.1); contains InterPro domain Animal haem peroxidase; (InterPro:IPR002007); contains InterPro domain Haem peroxidase; (InterPro:IPR010255)\\
## Solyc04g007480 & NA & NA\\
## Solyc04g007950 & AT2G01660 & 33 kDa secretory protein-related; similar to receptor-like protein kinase-related [Arabidopsis thaliana] (TAIR:AT5G37660.2); similar to Os04g0537800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053427.1); similar to receptor-like protein kinase-like [Oryza sativa (japonica cultivar-group)] (GB:BAD25786.1); contains InterPro domain Protein of unknown function DUF26; (InterPro:IPR002902)\\
## \addlinespace
## Solyc04g008090 & NA & NA\\
## Solyc04g014360 & NA & NA\\
## Solyc04g049080 & NA & NA\\
## Solyc04g050050 & AT5G03040 & IQD2 (IQ-domain 2); calmodulin binding; similar to IQD1 (IQ-DOMAIN 1), calmodulin binding [Arabidopsis thaliana] (TAIR:AT3G09710.1); similar to IQ calmodulin-binding re (GB:ABE78306.1); contains InterPro domain IQ calmodulin-binding region; (InterPro:IPR000048)\\
## Solyc04g064670 & AT1G77090 & thylakoid lumenal 29.8 kDa protein; Identical to Thylakoid lumenal 29.8 kDa protein, chloroplast precursor [Arabidopsis Thaliana] (GB:O49292); similar to thylakoid lumenal 20 kDa protein [Arabidopsis thaliana] (TAIR:AT3G56650.1); similar to Os12g0190200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066340.1); similar to thylakoid lumenal 29.8 kDa protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA96032.2); contains InterPro domain Photosystem II oxygen evolving complex protein PsbP; (InterPro:IPR002683)\\
## \addlinespace
## Solyc04g071360 & NA & NA\\
## Solyc04g072020 & AT1G71697 & Encodes choline kinase. mRNA levels are increased in response to wounding.\\
## Solyc04g072030 & AT1G60500 & dynamin family protein; similar to dynamin family protein [Arabidopsis thaliana] (TAIR:AT1G60530.1); similar to OSIGBa0103I21.1 [Oryza sativa (indica cultivar-group)] (GB:CAH65868.1); similar to Os03g0260000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049617.1); similar to Dynamin central re (GB:ABE80642.1); contains InterPro domain Dynamin GTPase effector; (InterPro:IPR003130); contains InterPro domain Dynamin central region; (InterPro:IPR000375); contains InterPro domain Dynamin; (InterPro:IPR001401)\\
## Solyc04g072940 & AT1G78110 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G22230.1); similar to Os09g0370000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001063016.1); similar to Os02g0753400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001048146.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAD15567.1)\\
## Solyc04g073990 & AT1G35720 & Encodes a member of the annexin gene family, a diverse, multigene family of calcium-dependent, membrane-binding proteins. The protein was determined to have peroxidase activity. This activity is thought to be dependent on the presence of post-translational modifications (most likely phosphorylation). The protein was shown to be present as a mixture of monomer and homodimer. The homodimerization seems to be dependent on the presence of Ca2+ or H2O2. The dimerization was prevented by the addition of DTT, β-mercaptoethanol and TCEP. Annat1 mRNA is expressed in flowers, roots,leaves and stems and is most abundant in stems. mRNA levels are increased in response to oxidative stress. Developmental expression patterns suggest a role in Golgi-mediated polysaccharide secretion.\\
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## Solyc04g074870 & AT1G28230 & Encodes a transporter that transports purines,cytokinins and other adenine derivatives. Expressed in the leaf hydathodes where it may be involved in re-uptake of cytokinins during guttation.\\
## Solyc04g076200 & AT1G09740 & ethylene-responsive protein, putative; similar to universal stress protein (USP) family protein [Arabidopsis thaliana] (TAIR:AT3G11930.1); similar to ER6 protein [Lycopersicon esculentum] (GB:AAD46412.1); contains InterPro domain Universal stress protein (Usp); (InterPro:IPR006015); contains InterPro domain UspA; (InterPro:IPR006016)\\
## Solyc04g077000 & NA & NA\\
## Solyc04g079710 & AT2G23450 & protein kinase family protein; Identical to Wall-associated receptor kinase-like 14 precursor (EC 2.7.11.-) (WAKL14) [Arabidopsis Thaliana] (GB:Q8RY67;GB:O80461); similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT5G66790.1); similar to WAK-like kinase [Lycopersicon esculentum] (GB:AAS45124.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc04g080710 & NA & NA\\
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## Solyc04g081910 & AT1G76040 & member of Calcium Dependent Protein Kinase\\
## Solyc05g006620 & NA & NA\\
## Solyc05g009500 & AT1G68570 & proton-dependent oligopeptide transport (POT) family protein; similar to proton-dependent oligopeptide transport (POT) family protein [Arabidopsis thaliana] (TAIR:AT3G54140.1); similar to Os06g0264500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057335.1); similar to nitrite transporter [Cucumis sativus] (GB:CAA93316.2); contains InterPro domain TGF-beta receptor, type I/II extracellular region; (InterPro:IPR000109)\\
## Solyc05g010050 & AT1G26120 & esterase-related; similar to ATPCME (PRENYLCYSTEINE METHYLESTERASE), prenylcysteine methylesterase [Arabidopsis thaliana] (TAIR:AT5G15860.1); similar to hypothetical protein [Cleome spinosa] (GB:ABD96862.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Carboxylesterase, type B; (InterPro:IPR002018)\\
## Solyc05g012670 & NA & NA\\
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## Solyc05g013850 & NA & NA\\
## Solyc05g014030 & AT3G26100 & regulator of chromosome condensation (RCC1) family protein; similar to regulator of chromosome condensation (RCC1) family protein [Arabidopsis thaliana] (TAIR:AT3G15430.2); similar to Os12g0284000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066582.1); similar to regulator of chromosome condensation, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA97468.1); contains InterPro domain Regulator of chromosome condensation, RCC1; (InterPro:IPR000408); contains InterPro domain Regulator of chromosome condensation/beta-lactamase-inhibitor protein II; (InterPro:IPR009091)\\
## Solyc05g015640 & NA & NA\\
## Solyc05g050540 & AT2G46570 & putative laccase, a member of laccase family of genes (with 17 members in Arabidopsis).\\
## Solyc05g051270 & AT5G37660 & receptor-like protein kinase-related; similar to 33 kDa secretory protein-related [Arabidopsis thaliana] (TAIR:AT2G01660.1); similar to Os04g0537800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053427.1); similar to receptor-like protein kinase-like [Oryza sativa (japonica cultivar-group)] (GB:BAD25786.1); contains InterPro domain Protein of unknown function DUF26; (InterPro:IPR002902)\\
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## Solyc05g052610 & AT5G58900 & myb family transcription factor; similar to myb family transcription factor [Arabidopsis thaliana] (TAIR:AT2G38090.1); similar to MYB-like transcription factor DIVARICATA [Antirrhinum majus] (GB:AAL78741.1); contains InterPro domain Homeodomain-related; (InterPro:IPR012287); contains InterPro domain Homeodomain-like; (InterPro:IPR009057); contains InterPro domain Myb-like DNA-binding region, SHAQKYF class; (InterPro:IPR006447); contains InterPro domain Myb, DNA-binding; (InterPro:IPR001005)\\
## Solyc05g052980 & AT3G11410 & Encodes protein phosphatase 2C. Negative regulator of ABA signalling. Expressed in seeds during germination. mRNA up-regulated by drought and ABA.\\
## Solyc05g053400 & NA & NA\\
## Solyc05g053990 & NA & NA\\
## Solyc05g054010 & NA & NA\\
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## Solyc05g054340 & NA & NA\\
## Solyc06g007440 & AT2G30360 & Encodes a SOS2-like protein kinase that is a member of the CBL-interacting protein kinase family.\\
## Solyc06g049050 & AT2G40610 & member of Alpha-Expansin Gene Family. Naming convention from the Expansin Working Group (Kende et al, 2004. Plant Mol Bio). Involved in the formation of nematode-induced syncytia in roots of Arabidopsis thaliana.\\
## Solyc06g054540 & AT5G18650 & zinc finger (C3HC4-type RING finger) family protein; similar to protein binding / zinc ion binding [Arabidopsis thaliana] (TAIR:AT3G62970.1); similar to Os12g0538500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066941.1); similar to CHY zinc finger family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF93958.1); similar to Zinc finger, RING-type; Zinc finger, CHY-type [Medicago truncatula] (GB:ABE83637.1); contains InterPro domain Zinc finger, CHY-type; (InterPro:IPR008913); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc06g067950 & AT1G52700 & phospholipase/carboxylesterase family protein; similar to phospholipase/carboxylesterase family protein [Arabidopsis thaliana] (TAIR:AT3G15650.1); similar to Phospholipase/Carboxylesterase [Medicago truncatula] (GB:ABE78991.1); contains InterPro domain Phospholipase/Carboxylesterase; (InterPro:IPR003140)\\
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## Solyc06g068440 & AT1G15950 & Encodes a cinnamoyl CoA reductase. Involved in lignin biosynthesis.\\
## Solyc06g068500 & NA & NA\\
## Solyc06g069730 & AT3G47470 & Encodes a chlorophyll a/b-binding protein that is more similar to the PSI Cab proteins than the PSII cab proteins. The predicted protein is about 20 amino acids shorter than most known Cab proteins.\\
## Solyc06g071480 & NA & NA\\
## Solyc06g071590 & AT5G50150 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G70550.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G10750.1); similar to putative carboxyl-terminal proteinase [Gossypium hirsutum] (GB:AAK84952.2); contains InterPro domain Protein of unknown function DUF239, plant; (InterPro:IPR004314)\\
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## Solyc06g073860 & AT5G22000 & CIC7E11; protein binding / zinc ion binding; similar to zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] (TAIR:AT4G14220.1); similar to Zinc finger, RING-type [Medicago truncatula] (GB:ABD32420.1); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc06g073960 & AT2G27210 & kelch repeat-containing serine/threonine phosphoesterase family protein; similar to kelch repeat-containing serine/threonine phosphoesterase family protein [Arabidopsis thaliana] (TAIR:AT4G03080.1); similar to kelch repeat-containing protein / serine/threonine phosphoesterase family protein [Arabidopsis thaliana] (TAIR:AT1G08420.1); similar to kelch repeat-containing serine/threonine phosphoesterase family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97885.1); similar to DNA topoisomerase II; Serine/threonine-specific protein phosphatase and bis(5-nucleosyl)-tetraphosphatase [Medicago truncatula] (GB:ABE78157.1); similar to Os12g0617900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067290.1); contains InterPro domain Kelch; (InterPro:IPR011498); contains InterPro domain Galactose oxidase, central; (InterPro:IPR011043); contains InterPro domain Serine/threonine-specific protein phosphatase and bis(5-nucleosyl)-tetraphosphatase; (InterPro:IPR006186); contains InterPro domain Kelch repeat; (InterPro:IPR006652); contains InterPro domain Metallophosphoesterase; (InterPro:IPR004843)\\
## Solyc06g074120 & NA & NA\\
## Solyc06g074950 & NA & NA\\
## Solyc06g075370 & NA & NA\\
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## Solyc06g075610 & NA & NA\\
## Solyc06g076110 & AT3G46550 & Isolated in a screen for salt hypersensitive mutants. Mutants have thinner cell walls, abnormal siliques and root growth is inhibited under salt stress. The gene has similarity to arabinogalactan proteins and domains associated with cell adhesion.\\
## Solyc06g076630 & AT4G33420 & peroxidase, putative; Identical to Peroxidase 47 precursor (EC 1.11.1.7) (Atperox P47) (ATP32) (PER47) [Arabidopsis Thaliana] (GB:Q9SZB9); similar to peroxidase [Arabidopsis thaliana] (TAIR:AT5G51890.1); similar to TPA: class III peroxidase 117 precursor [Oryza sativa (japonica cultivar-group)] (GB:CAH69359.1); similar to Os08g0113000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060836.1); contains InterPro domain Haem peroxidase; (InterPro:IPR010255); contains InterPro domain Haem peroxidase, plant/fungal/bacterial; (InterPro:IPR002016); contains InterPro domain Plant peroxidase; (InterPro:IPR000823)\\
## Solyc06g076670 & NA & NA\\
## Solyc06g082010 & NA & NA\\
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## Solyc07g006110 & AT2G23950 & leucine-rich repeat family protein / protein kinase family protein; similar to NIK1 (NSP-INTERACTING KINASE 1), kinase [Arabidopsis thaliana] (TAIR:AT5G16000.1); similar to leucine-rich repeat family protein / protein kinase family protein [Arabidopsis thaliana] (TAIR:AT4G30520.1); similar to NIK2 (NSP-INTERACTING KINASE 2), protein kinase [Arabidopsis thaliana] (TAIR:AT3G25560.1); similar to Leucine-rich repeat, typical subtype [Medicago truncatula] (GB:ABE94689.1); similar to leucine-rich repeat receptor-like kinase [Populus tomentosa] (GB:ABG73621.1); similar to hypothetical protein [Cleome spinosa] (GB:ABD96874.1); contains InterPro domain Serine/threonine protein kinase; (InterPro:IPR002290); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc07g007020 & NA & NA\\
## Solyc07g007180 & NA & NA\\
## Solyc07g007790 & AT5G20280 & Encodes a protein with putative sucrose-phosphate synthase activity.\\
## Solyc07g007980 & AT5G15080 & protein kinase, putative; similar to kinase [Arabidopsis thaliana] (TAIR:AT3G28690.2); similar to protein kinase, putative [Arabidopsis thaliana] (TAIR:AT3G01300.1); similar to Os01g0588500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001043435.1); similar to serine/threonine protein kinase-like [Solanum tuberosum] (GB:AAU89742.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
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## Solyc07g008150 & AT2G26600 & glycosyl hydrolase family 17 protein; similar to glycosyl hydrolase family 17 protein [Arabidopsis thaliana] (TAIR:AT3G15800.1); similar to beta-1,3-glucanase 1 [Ziziphus jujuba] (GB:AAY25165.1); contains InterPro domain Glycoside hydrolase, family 17; (InterPro:IPR000490)\\
## Solyc07g008920 & AT5G57240 & oxysterol binding; similar to oxysterol-binding family protein [Arabidopsis thaliana] (TAIR:AT4G25850.1); similar to Oxysterol-binding protein [Medicago truncatula] (GB:ABD28638.1); contains InterPro domain Oxysterol-binding protein; (InterPro:IPR000648)\\
## Solyc07g009130 & NA & NA\\
## Solyc07g020960 & NA & NA\\
## Solyc07g022910 & AT2G26570 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G42880.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G33390.1); similar to IMP dehydrogenase/GMP reductase [Medicago truncatula] (GB:ABE88908.1); contains InterPro domain Protein of unknown function DUF827, plant; (InterPro:IPR008545)\\
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## Solyc07g039310 & AT4G29720 & ATPAO5 (POLYAMINE OXIDASE 5); amine oxidase; similar to amine oxidase family protein / SWIRM domain-containing protein [Arabidopsis thaliana] (TAIR:AT4G16310.1); similar to putative polyamine oxidase [Brassica juncea] (GB:AAO16558.1); contains InterPro domain Amine oxidase; (InterPro:IPR002937)\\
## Solyc07g041730 & AT5G45550 & mob1/phocein family protein; similar to mob1/phocein family protein [Arabidopsis thaliana] (TAIR:AT4G19050.1); similar to Mob1-like protein [Medicago sativa subsp. falcata] (GB:CAC41010.2); similar to Os03g0577200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050541.1); contains InterPro domain Mob1/phocein; (InterPro:IPR005301); contains InterPro domain Ferritin/ribonucleotide reductase-like; (InterPro:IPR009078)\\
## Solyc07g042990 & AT3G17640 & leucine-rich repeat family protein; similar to leucine-rich repeat family protein [Arabidopsis thaliana] (TAIR:AT1G03440.1); similar to putative leucine-rich repeat family protein [Oryza sativa (japonica cultivar-group)] (GB:AAV59431.1); similar to Os05g0406800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055516.1); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc07g048050 & AT2G04850 & auxin-responsive protein-related; similar to auxin-responsive family protein [Arabidopsis thaliana] (TAIR:AT3G25290.2); similar to Hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:AAN59777.1); similar to Os03g0194300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001049250.1); contains InterPro domain Protein of unknown function DUF568, DOMON-like; (InterPro:IPR007613); contains InterPro domain DOMON related; (InterPro:IPR005018); contains InterPro domain Cytochrome b561 / ferric reductase transmembrane; (InterPro:IPR006593)\\
## Solyc07g049150 & NA & NA\\
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## Solyc07g049660 & AT5G17540 & transferase family protein; similar to CHAT (ACETYL COA:(Z)-3-HEXEN-1-OL ACETYLTRANSFERASE), acetyl CoA:(Z)-3-hexen-1-ol acetyltransferase [Arabidopsis thaliana] (TAIR:AT3G03480.1); similar to benzoyl coenzyme A: benzyl alcohol benzoyl transferase [Petunia x hybrida] (GB:AAT68601.1); contains InterPro domain Transferase; (InterPro:IPR003480)\\
## Solyc07g052480 & AT3G21720 & isocitrate lyase, putative; Identical to Isocitrate lyase (EC 4.1.3.1) (Isocitrase) (Isocitratase) (ICL) (ICL) [Arabidopsis Thaliana] (GB:P28297;GB:Q41948;GB:Q9LSZ2); similar to mutase family protein [Arabidopsis thaliana] (TAIR:AT1G77060.1); similar to Isocitrate lyase (Isocitrase) (Isocitratase) (ICL) (GB:P17069); similar to Isocitrate lyase (Isocitrase) (Isocitratase) (ICL) (GB:P25248); similar to glyoxysomal isocitrate lyase [Brassica napus] (GB:CAA73792.1); contains InterPro domain Isocitrate lyase; (InterPro:IPR006254); contains InterPro domain Isocitrate lyase and phosphorylmutase; (InterPro:IPR000918)\\
## Solyc07g053920 & AT2G20680 & glycosyl hydrolase family 5 protein / cellulase family protein; similar to glycosyl hydrolase family 5 protein / cellulase family protein [Arabidopsis thaliana] (TAIR:AT4G28320.1); similar to putative (1-4)-beta-mannan endohydrolase [Oryza sativa (japonica cultivar-group)] (GB:BAB56016.1); similar to Os01g0746700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044230.1); contains InterPro domain Glycoside hydrolase, family 5; (InterPro:IPR001547)\\
## Solyc07g056540 & AT3G14420 & (S)-2-hydroxy-acid oxidase, peroxisomal, putative / glycolate oxidase, putative / short chain alpha-hydroxy acid oxidase, putative; Identical to Probable peroxisomal (S)-2-hydroxy-acid oxidase 2 (EC 1.1.3.15) (Glycolate oxidase 2) (GOX 2) (Short chain alpha-hydroxy acid oxidase 2) [Arabidopsis Thaliana] (GB:Q9LRR9;GB:Q8VZA4;GB:Q944K6); similar to (S)-2-hydroxy-acid oxidase, peroxisomal, putative / glycolate oxidase, putative / short chain alpha-hydroxy acid oxidase, putative [Arabidopsis thaliana] (TAIR:AT3G14415.1); similar to (S)-2-hydroxy-acid oxidase (EC 1.1.3.15) - cucurbit (GB:T10242); similar to glycolate oxidase [Mesembryanthemum crystallinum] (GB:AAB40396.1); similar to glycolate oxidase [Brassica napus] (GB:AAV28535.1); contains InterPro domain FMN/related compound-binding core; (InterPro:IPR003009); contains InterPro domain FMN-dependent alpha-hydroxy acid dehydrogenase; (InterPro:IPR000262); contains InterPro domain FMN-dependent alpha-hydroxy acid dehydrogenase, active site; (InterPro:IPR008259)\\
## Solyc07g061920 & AT3G14570 & encodes a protein similar to callose synthase\\
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## Solyc07g062140 & AT1G78580 & Encodes an enzyme putatively involved in trehalose biosynthesis. The protein has a trehalose synthase (TPS)-like domain but no trehalose phosphatase (TPP)-like domain. ATTPS1 is able to complement yeast tps1 mutants in vivo. The gene product modulates cell growth but not cell differentiation by determining cell wall deposition and cell division.\\
## Solyc07g062510 & AT3G14690 & putative cytochrome P450\\
## Solyc07g063600 & AT5G54270 & Lhcb3 protein is a component of the main light harvesting chlorophyll a/b-protein complex of Photosystem II (LHC II).\\
## Solyc07g065880 & AT3G44730 & kinesin motor protein-related; similar to microtubule motor [Arabidopsis thaliana] (TAIR:AT2G47500.1); similar to ATK4 (ARABIDOPSIS THALIANA KINESIN 4), microtubule motor [Arabidopsis thaliana] (TAIR:AT5G27000.1); similar to Kinesin-4, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF95490.1); similar to Calponin-like actin-binding; Kinesin, motor re (GB:ABE84966.1); similar to Calponin-like actin-binding; Kinesin, motor re (GB:ABE83078.1); contains InterPro domain Kinesin, motor region; (InterPro:IPR001752); contains InterPro domain Calponin-like actin-binding; (InterPro:IPR001715)\\
## Solyc07g066010 & AT5G23810 & Encodes nonfunctional amino acid transporter. AAP7 is the most distantly related member of the AAP family, a group of well characterized amino acid transporters within the ATF1 superfamily. Expression of this gene has not been detected with RNA gel blots or promoter GUS studies.\\
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## Solyc08g005050 & NA & NA\\
## Solyc08g061270 & AT1G72510 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G09970.1); similar to 4Fe-4S ferredoxin, iron-sulfur binding [Medicago truncatula] (GB:ABE81755.1); contains InterPro domain Protein of unknown function DUF1677, plant; (InterPro:IPR012876)\\
## Solyc08g074390 & AT5G58090 & glycosyl hydrolase family 17 protein; Identical to Putative glucan endo-1,3-beta-glucosidase 6 precursor (EC 3.2.1.39) ((1->3)-beta-glucan endohydrolase 6) ((1->3)-beta-glucanase 6) (Beta- 1,3-endoglucanase 6) (Beta-1,3-glucanase 6) [Arabidopsis Thaliana] (GB:Q93Z08;GB:Q9FGT5); similar to glycosyl hydrolase family 17 protein [Arabidopsis thaliana] (TAIR:AT4G31140.1); similar to Os02g0139300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045844.1); similar to Os08g0224500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061277.1); similar to putative 1,3-beta-glucanase [Oryza sativa (japonica cultivar-group)] (GB:AAP12947.1); contains InterPro domain X8; (InterPro:IPR012946); contains InterPro domain Glycoside hydrolase, family 17; (InterPro:IPR000490)\\
## Solyc08g075490 & AT4G19170 & chloroplast-targeted member of a family of enzymes similar to nine-cis-epoxycarotenoid dioxygenase\\
## Solyc08g075790 & AT2G44230 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G44260.1); similar to Protein of unknown function DUF946, plant [Medicago truncatula] (GB:ABE82110.1); contains InterPro domain Protein of unknown function DUF946, plant; (InterPro:IPR009291)\\
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## Solyc08g077530 & AT4G17090 & Encodes a beta-amylase targeted to the chloroplast. Transgenic BMY8 RNAi lines fail to accumulate maltose during cold shock suggesting that maltose accumulation coincides with BMY8 expression. Apart from maltose, the sugar content of the RNAi lines were similar to wildtype (glucose and sucrose unaffected).\\
## Solyc08g078380 & AT4G17430 & similar to hypothetical protein 31.t00055 [Brassica oleracea] (GB:ABD65093.1)\\
## Solyc08g078500 & AT4G17350 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G47440.1); similar to hypothetical protein 40.t00010 [Brassica oleracea] (GB:ABD65135.1); similar to hypothetical protein 31.t00035 [Brassica oleracea] (GB:ABD65121.1); contains InterPro domain Pleckstrin-like, plant; (InterPro:IPR013666); contains InterPro domain Pleckstrin-like; (InterPro:IPR001849); contains InterPro domain Protein of unknown function DUF828, plant; (InterPro:IPR008546)\\
## Solyc08g079730 & AT4G22790 & MATE efflux family protein; similar to ZF14, transporter [Arabidopsis thaliana] (TAIR:AT1G58340.1); similar to Multi antimicrobial extrusion protein MatE [Medicago truncatula] (GB:ABE90557.1); similar to Os03g0858800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051964.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## Solyc08g080890 & AT1G63440 & The Arabidopsis P-type ATPase HMA5 is involved in Cu detoxification. hma5 mutant plants exhibit Cu hypersensitivity, which is especially dramatic in roots where HMA5 is mostly expressed.\\
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## Solyc08g083220 & NA & NA\\
## Solyc09g005260 & AT3G51860 & CAX3 (cation exchanger 3); cation:cation antiporter; Identical to Vacuolar cation/proton exchanger 3 (Ca(2+)/H(+) exchanger 3) (Ca(2+)/H(+) antiporter CAX3) (CAX3) [Arabidopsis Thaliana] (GB:Q93Z81;GB:O65022;GB:Q0WUY4;GB:Q9LKW8); similar to CAX1 (CATION EXCHANGER 1), calcium:hydrogen antiporter [Arabidopsis thaliana] (TAIR:AT2G38170.1); similar to cax51 [Capsella bursa-pastoris] (GB:AAT70233.1); contains InterPro domain Calcium/proton exchanger; (InterPro:IPR004713); contains InterPro domain Sodium/calcium exchanger membrane region; (InterPro:IPR004837); contains InterPro domain Calcium/proton exchanger superfamily; (InterPro:IPR004798)\\
## Solyc09g008780 & AT2G36630 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G25737.1); similar to Os03g0726500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051136.1); similar to membrane protein-like protein [Glycine max] (GB:ABC47859.1); contains InterPro domain Protein of unknown function DUF81; (InterPro:IPR002781)\\
## Solyc09g010680 & NA & NA\\
## Solyc09g013110 & AT3G54120 & reticulon family protein (RTNLB12); similar to reticulon family protein (RTNLB11) [Arabidopsis thaliana] (TAIR:AT3G19460.1); similar to Os04g0670000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054209.1); similar to H0818H01.12 [Oryza sativa (indica cultivar-group)] (GB:CAJ86090.1); similar to Os04g0367400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052556.1); contains InterPro domain Reticulon; (InterPro:IPR003388)\\
## \addlinespace
## Solyc09g018010 & NA & NA\\
## Solyc09g059250 & NA & NA\\
## Solyc09g065480 & AT3G63240 & endonuclease/exonuclease/phosphatase family protein; similar to endonuclease/exonuclease/phosphatase family protein [Arabidopsis thaliana] (TAIR:AT2G32010.1); similar to endonuclease/exonuclease/phosphatase family protein [Arabidopsis thaliana] (TAIR:AT1G05470.1); similar to Inositol polyphosphate related phosphatase [Medicago truncatula] (GB:ABE87137.1); similar to putative inositol polyphosphate 5-phosphatase [Oryza sativa (japonica cultivar-group)] (GB:AAO37964.1); similar to Type I inositol-1,4,5-trisphosphate 5-phosphatase CVP2, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF94102.1); contains InterPro domain Inositol polyphosphate related phosphatase; (InterPro:IPR000300); contains InterPro domain Endonuclease/exonuclease/phosphatase; (InterPro:IPR005135)\\
## Solyc09g074630 & AT1G03010 & phototropic-responsive NPH3 family protein; similar to phototropic-responsive NPH3 family protein [Arabidopsis thaliana] (TAIR:AT2G47860.1); similar to Os03g0347700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050100.1); similar to transposon protein, putative, Mutator sub-class, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA91176.1); contains InterPro domain NPH3; (InterPro:IPR004249); contains InterPro domain BTB; (InterPro:IPR000210)\\
## Solyc09g075900 & AT5G19530 & Encodes a spermine synthase. Required for internode elongation and vascular development, specifically in the mechanism that defines the boundaries between veins and nonvein regions. This mechanism may be mediated by polar auxin transport. Though ACL5 has been shown to function as a spermine synthase in E. coli, an ACL5 knockout has no effect on the endogenous levels of free and conjugated polyamines in Arabidopsis, suggesting that ACL5 may have a very specific or altogether different in vivo function.\\
## \addlinespace
## Solyc09g083020 & NA & NA\\
## Solyc10g005060 & AT5G54160 & A caffeic acid/5-hydroxyferulic acid O-methyltransferase. Interacts with 14-4-3 proteins in yeast 2 hybrid assay. AtOMT1 (At5g54160) encodes a flavonol 3’-O-methyltransferase that is highly active towards quercetin and myricetin. The substrate specificity identifies the enzyme as flavonol 3’-methyltransferase which replaces the former annotation of the gene to encode a caffeic acid/5-hydroxyferulic acid O-methyltransferase\\
## Solyc10g006860 & AT2G17845 & short-chain dehydrogenase/reductase (SDR) family protein; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT3G55290.1); similar to putative short-chain type alcohol dehydrogenase [Solanum tuberosum] (GB:AAN32641.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## Solyc10g008400 & NA & NA\\
## Solyc10g049660 & AT2G14820 & phototropic-responsive NPH3 family protein; similar to phototropic-responsive NPH3 family protein [Arabidopsis thaliana] (TAIR:AT5G67440.1); similar to Os12g0583500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067147.1); similar to transposon protein, putative, Mutator sub-class, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF94544.1); similar to Os03g0609800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050649.1); contains InterPro domain NPH3; (InterPro:IPR004249)\\
## \addlinespace
## Solyc10g054930 & AT2G21120 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G38730.1); similar to Os06g0715700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058587.1); similar to Os05g0430700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055625.1); similar to Protein of unknown function DUF803 [Medicago truncatula] (GB:ABE83665.1); contains InterPro domain Protein of unknown function DUF803; (InterPro:IPR008521)\\
## Solyc10g076710 & AT3G08510 & Phosphoinositide-specific phospholipase C (PI-PLC), catalyzes hydrolysis of phosphatidylinositol 4,5-bisphosphate into inositol 1,4,5-trisphosphate and diacylglycerol.\\
## Solyc10g080980 & AT5G07050 & nodulin MtN21 family protein; similar to nodulin MtN21 family protein [Arabidopsis thaliana] (TAIR:AT2G40900.1); similar to Protein of unknown function DUF6, transmembrane [Medicago truncatula] (GB:ABE78418.1); contains InterPro domain Protein of unknown function DUF6, transmembrane; (InterPro:IPR000620)\\
## Solyc10g082000 & NA & NA\\
## Solyc10g086240 & AT2G36970 & UDP-glucoronosyl/UDP-glucosyl transferase family protein; similar to glycosyltransferase family protein [Arabidopsis thaliana] (TAIR:AT2G28080.1); similar to UDP-glucuronosyl/UDP-glucosyltransferase [Medicago truncatula] (GB:ABE87217.1); similar to Os10g0442300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064696.1); contains InterPro domain UDP-glucuronosyl/UDP-glucosyltransferase; (InterPro:IPR002213)\\
## \addlinespace
## Solyc11g005820 & NA & NA\\
## Solyc11g006590 & NA & NA\\
## Solyc11g006930 & NA & NA\\
## Solyc11g006990 & AT3G54260 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT2G42570.1); similar to unknown [Pisum sativum] (GB:ABA29157.1); contains InterPro domain Protein of unknown function DUF231, plant; (InterPro:IPR004253)\\
## Solyc11g008080 & NA & NA\\
## \addlinespace
## Solyc11g010380 & AT5G65380 & ripening-responsive protein, putative; similar to antiporter [Arabidopsis thaliana] (TAIR:AT5G10420.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT5G44050.1); similar to ripening regulated protein DDTFR18 [Lycopersicon esculentum] (GB:AAG49032.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## Solyc11g011000 & AT5G37660 & receptor-like protein kinase-related; similar to 33 kDa secretory protein-related [Arabidopsis thaliana] (TAIR:AT2G01660.1); similar to Os04g0537800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053427.1); similar to receptor-like protein kinase-like [Oryza sativa (japonica cultivar-group)] (GB:BAD25786.1); contains InterPro domain Protein of unknown function DUF26; (InterPro:IPR002902)\\
## Solyc11g013450 & NA & NA\\
## Solyc11g040340 & AT1G71380 & glycosyl hydrolase family 9 protein; Identical to Endoglucanase 9 precursor (EC 3.2.1.4) (Endo-1,4-beta glucanase 9) (Cellulase 3) (AtCEL3) (CEL3) [Arabidopsis Thaliana] (GB:Q9C9H5;GB:P80855;GB:Q38817;GB:Q8LDE8); similar to glycosyl hydrolase family 9 protein [Arabidopsis thaliana] (TAIR:AT1G22880.1); similar to endo-1,4-beta-glucanase [Malus x domestica] (GB:AAQ55294.1); similar to Cel9B [Populus tremula x Populus tremuloides] (GB:AAT75042.1); similar to basic cellulase [Citrus sinensis] (GB:AAB65156.1); contains InterPro domain Six-hairpin glycosidase; (InterPro:IPR008928); contains InterPro domain Glycoside transferase, six-hairpin, subgroup; (InterPro:IPR012343); contains InterPro domain Glycoside hydrolase, family 9; (InterPro:IPR001701)\\
## Solyc11g051160 & NA & NA\\
## \addlinespace
## Solyc11g062100 & AT1G63440 & The Arabidopsis P-type ATPase HMA5 is involved in Cu detoxification. hma5 mutant plants exhibit Cu hypersensitivity, which is especially dramatic in roots where HMA5 is mostly expressed.\\
## Solyc11g062440 & AT5G21105 & L-ascorbate oxidase/ copper ion binding; similar to L-ascorbate oxidase, putative [Arabidopsis thaliana] (TAIR:AT5G21100.1); similar to ascorbate oxidase [Brassica juncea] (GB:AAF20933.1); similar to ascorbate oxidase [Brassica juncea] (GB:AAF20931.1); similar to ascorbate oxidase [Brassica juncea] (GB:AAF20932.1); contains InterPro domain Multicopper oxidase, copper-binding site; (InterPro:IPR002355); contains InterPro domain Cupredoxin; (InterPro:IPR008972); contains InterPro domain Multicopper oxidase, type 3; (InterPro:IPR011707); contains InterPro domain Multicopper oxidase, type 2; (InterPro:IPR011706); contains InterPro domain Multicopper oxidase, type 1; (InterPro:IPR001117)\\
## Solyc11g069350 & AT5G60580 & protein binding / zinc ion binding; similar to zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] (TAIR:AT3G09760.1); similar to Os06g0677300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001058355.1); similar to zinc finger (C3HC4-type RING finger) protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD45521.1); contains InterPro domain RINGv; (InterPro:IPR011016); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc11g069570 & AT2G37210 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G53450.1); similar to Conserved hypothetical protein 730 [Medicago truncatula] (GB:ABE89044.1); contains InterPro domain Conserved hypothetical protein 730; (InterPro:IPR005269)\\
## Solyc11g071610 & AT2G27150 & Encodes the aldehyde oxidase delta isoform catalyzing the final step in abscisic acid biosynthesis.\\
## \addlinespace
## Solyc11g073020 & NA & NA\\
## Solyc12g009200 & AT1G19150 & PSI type II chlorophyll a/b-binding protein (Lhca2*1) mRNA,\\
## Solyc12g010540 & AT4G30440 & UDP-D-glucuronate 4-epimerase\\
## Solyc12g013710 & AT5G54190 & light-dependent NADPH:protochlorophyllide oxidoreductase A\\
## Solyc12g036120 & AT1G30420 & member of MRP subfamily\\
## \addlinespace
## Solyc12g040460 & AT3G18215 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G24600.1); similar to hypothetical protein [Oryza sativa (japonica cultivar-group)] (GB:BAC55679.1); similar to Os02g0292800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046597.1); similar to Os08g0153900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001061011.1); contains InterPro domain Protein of unknown function DUF599; (InterPro:IPR006747)\\
## Solyc12g040790 & AT3G18000 & Arabidopsis thaliana N-methyltransferase-like protein mRNA.\\
## Solyc12g042770 & AT3G15840 & similar to Os03g0586500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050569.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABF97352.1)\\
## Solyc12g055970 & AT1G64390 & endo-1,4-beta-glucanase, putative / cellulase, putative; Identical to Endoglucanase 6 precursor (EC 3.2.1.4) (Endo-1,4-beta glucanase 6) [Arabidopsis Thaliana] (GB:Q42059;GB:Q8H160;GB:Q9C7W3); similar to endo-1,4-beta-glucanase, putative / cellulase, putative [Arabidopsis thaliana] (TAIR:AT4G11050.1); similar to endo-1,4-beta-glucanase, putative / cellulase, putative [Arabidopsis thaliana] (TAIR:AT1G48930.1); similar to glycosyl hydrolase family 9 protein [Arabidopsis thaliana] (TAIR:AT2G32990.1); similar to cellulase [Fragaria x ananassa] (GB:AAC78298.2); similar to endo-beta-1,4-glucanase [Fragaria x ananassa] (GB:CAB43938.1); similar to endo-beta-1,4-glucanase [Fragaria x ananassa] (GB:CAC94006.1); contains InterPro domain Six-hairpin glycosidase; (InterPro:IPR008928); contains InterPro domain Glycoside transferase, six-hairpin, subgroup; (InterPro:IPR012343); contains InterPro domain Glycoside hydrolase, family 9; (InterPro:IPR001701)\\
## Solyc12g087830 & NA & NA\\
## \addlinespace
## Solyc12g094620 & AT4G35090 & Encodes a peroxisomal catalase, highly expressed in bolts and leaves. mRNA expression patterns show circadian regulation with mRNA levels being high in the subjective early morning.\\
## Solyc12g099200 & NA & NA\\
## \bottomrule
## \end{tabular}Cluster 34
clusterVis(34)## Using gene as id variables
clusterVis_PCA(34)
clusterVis_line(34)## Using gene, curated as id variables
#clusterGO(34)
y <- genesInClust(34, data.val2, annotation) ## [1] 51kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc01g088050 & NA & NA\\
## Solyc01g104010 & AT1G22030 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G77855.1); similar to Os08g0104800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060781.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD08928.1); similar to Os01g0875000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044961.1); contains domain RHOMBOID-RELATED (PTHR22936); contains domain UNCHARACTERIZED (PTHR22936:SF1)\\
## Solyc01g108120 & NA & NA\\
## Solyc01g108530 & NA & NA\\
## Solyc01g109150 & NA & NA\\
## \addlinespace
## Solyc02g068550 & AT4G15090 & Encodes a nuclear localized protein involved in far red light response signaling. Loss of function mutants are defective in far red light responses. Interacts with homologous gene FHY3.\\
## Solyc02g078130 & NA & NA\\
## Solyc03g025500 & NA & NA\\
## Solyc03g093850 & AT4G25120 & UvrD/REP helicase family protein; similar to Os07g0492100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059683.1); similar to ATP-dependent DNA helicase PcrA [Clostridium sp. OhILAs] (GB:ZP_01362558.1); contains InterPro domain UvrD/REP helicase; (InterPro:IPR000212)\\
## Solyc03g111370 & AT5G63280 & zinc finger (C2H2 type) family protein; similar to zinc finger (C2H2 type) family protein [Arabidopsis thaliana] (TAIR:AT5G40710.1); similar to Os12g0233400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001066450.1); similar to PREDICTED: similar to CG4133-PA [Tribolium castaneum] (GB:XP_969705.1); contains InterPro domain Zinc finger, C2H2-type; (InterPro:IPR007087)\\
## \addlinespace
## Solyc03g112790 & AT5G50290 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G17350.1); similar to Os05g0409100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055526.1); similar to Os06g0364500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057608.1)\\
## Solyc03g112920 & NA & NA\\
## Solyc03g122340 & AT1G17420 & Lipoxygenase\\
## Solyc03g123660 & AT1G17280 & UBC34 (ubiquitin-conjugating enzyme 32); similar to UBC33, ubiquitin-protein ligase [Arabidopsis thaliana] (TAIR:AT5G50430.2); similar to Ubiquitin-conjugating enzyme, E2 [Medicago truncatula] (GB:ABE92643.1); contains InterPro domain Ubiquitin-conjugating enzyme, E2; (InterPro:IPR000608)\\
## Solyc04g011560 & NA & NA\\
## \addlinespace
## Solyc04g014480 & AT5G37670 & 15.7 kDa class I-related small heat shock protein-like (HSP15.7-CI); similar to 17.6 kDa class I heat shock protein (HSP17.6A-CI) [Arabidopsis thaliana] (TAIR:AT1G59860.1); similar to Os06g0253100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057300.1); similar to cytosolic class I small heat-shock protein HSP17.5 [Castanea sativa] (GB:CAA08908.1); contains InterPro domain HSP20-like chaperone; (InterPro:IPR008978); contains InterPro domain Heat shock protein Hsp20; (InterPro:IPR002068)\\
## Solyc04g026300 & NA & NA\\
## Solyc04g071570 & NA & NA\\
## Solyc04g076530 & NA & NA\\
## Solyc04g082670 & AT1G76400 & ribophorin I family protein; similar to ribophorin I family protein [Arabidopsis thaliana] (TAIR:AT2G01720.1); similar to Os05g0301500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055134.1); similar to Ribophorin I [Medicago truncatula] (GB:ABE83243.1); contains InterPro domain Ribophorin I; (InterPro:IPR007676)\\
## \addlinespace
## Solyc05g053410 & AT2G18790 & Red/far-red photoreceptor involved in the regulation of de-etiolation. Exists in two inter-convertible forms: Pr and Pfr (active). Involved in the light-promotion of seed germination and in the shade avoidance response.\\
## Solyc06g050280 & AT5G58380 & Encodes a CBL-interacting protein kinase with similarity to SOS protein kinase.\\
## Solyc06g054600 & NA & NA\\
## Solyc06g060090 & NA & NA\\
## Solyc06g073500 & AT3G59300 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G24060.1); similar to expressed protein [Oryza sativa (japonica cultivar-group)] (GB:ABA94153.2); similar to Os01g0899500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045101.1)\\
## \addlinespace
## Solyc06g074940 & AT5G60790 & member of GCN subfamily\\
## Solyc08g023460 & AT5G46150 & LEM3 (ligand-effect modulator 3) family protein / CDC50 family protein; similar to LEM3 (ligand-effect modulator 3) family protein / CDC50 family protein [Arabidopsis thaliana] (TAIR:AT3G12740.1); similar to LEM3 (ligand-effect modulator 3) family protein / CDC50 family protein [Arabidopsis thaliana] (TAIR:AT1G54320.1); similar to Os03g0785500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001051483.1); similar to Os02g0173800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046043.1); similar to hypothetical protein [Lotus japonicus] (GB:BAD32828.1); contains InterPro domain Protein of unknown function DUF284, transmembrane eukaryotic; (InterPro:IPR005045)\\
## Solyc08g078490 & AT4G17360 & formyltetrahydrofolate deformylase, putative; similar to formyltetrahydrofolate deformylase, putative [Arabidopsis thaliana] (TAIR:AT5G47435.1); similar to formyltetrahydrofolate deformylase, putative [Brassica oleracea] (GB:ABD64983.1); contains InterPro domain Formyltetrahydrofolate deformylase; (InterPro:IPR004810); contains InterPro domain Formyl transferase, N-terminal; (InterPro:IPR002376)\\
## Solyc09g007310 & AT5G02880 & encodes a ubiquitin-protein ligase containing a HECT domain. There are six other HECT-domain UPLs in Arabidopsis.\\
## Solyc09g009620 & NA & NA\\
## \addlinespace
## Solyc09g011350 & AT2G37880 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G21050.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD07762.1); contains InterPro domain Protein of unknown function DUF617, plant; (InterPro:IPR006460)\\
## Solyc09g011600 & NA & NA\\
## Solyc09g015450 & NA & NA\\
## Solyc09g065000 & NA & NA\\
## Solyc09g083230 & NA & NA\\
## \addlinespace
## Solyc09g089660 & AT5G43500 & encodes a protein whose sequence is similar to actin-related proteins (ARPs) in other organisms. Member of nuclear ARP family of genes.\\
## Solyc09g091200 & AT2G33205 & TMS membrane family protein / tumour differentially expressed (TDE) family protein; similar to MEE55 (maternal effect embryo arrest 55) [Arabidopsis thaliana] (TAIR:AT4G13345.1); similar to TMS membrane protein/tumour differentially expressed protein [Medicago truncatula] (GB:ABE91594.1); similar to Os04g0506300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053258.1); similar to OSIGBa0145C12.5 [Oryza sativa (indica cultivar-group)] (GB:CAH67268.1); contains InterPro domain TMS membrane protein/tumour differentially expressed protein; (InterPro:IPR005016)\\
## Solyc09g091810 & NA & NA\\
## Solyc09g092420 & AT1G31830 & amino acid permease family protein; similar to amino acid permease family protein [Arabidopsis thaliana] (TAIR:AT1G31820.1); similar to amino acid permease family protein [Arabidopsis thaliana] (TAIR:AT5G05630.1); similar to putative amino acid permease [Oryza sativa (japonica cultivar-group)] (GB:AAR10855.1); similar to amino acid permease family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97257.1); similar to Os03g0576900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050538.1); contains InterPro domain Amino acid permease-associated region; (InterPro:IPR004841); contains InterPro domain Amino acid/polyamine transporter I; (InterPro:IPR002293)\\
## Solyc09g098090 & AT1G60690 & aldo/keto reductase family protein; similar to ATB2, oxidoreductase [Arabidopsis thaliana] (TAIR:AT1G60710.1); similar to aldo/keto reductase AKR [Manihot esculenta] (GB:AAX84672.1); contains InterPro domain Aldo/keto reductase; (InterPro:IPR001395)\\
## \addlinespace
## Solyc10g053880 & NA & NA\\
## Solyc10g055400 & NA & NA\\
## Solyc10g081730 & NA & NA\\
## Solyc10g086700 & NA & NA\\
## Solyc11g010950 & AT3G11220 & A subunit of Elongator, a histone acetyl transferase complex, consisting of six subunits (ELP1–ELP6), that copurifies with the elongating RNAPII in yeast and humans. Three Arabidopsis thaliana genes, encoding homologs of the yeast Elongator subunits ELP1, ELP3 (histone acetyl transferase), and ELP4 are responsible for the narrow leaf phenotype in elongata mutants and for reduced root growth that results from a decreased cell division rate.\\
## \addlinespace
## Solyc11g017330 & NA & NA\\
## Solyc11g043210 & AT4G33650 & Encodes a protein with high sequence similarity to the dynamin superfamily. Among those members ADL2 was most closely related to Dnm1p of yeast and likely a member of the Vps1p subfamily. Widely expressed in various tissues with highest expression in flower tissues. Chloroplast localized.\\
## Solyc12g005120 & AT5G54870 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT1G70160.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT4G27020.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAD53001.1); similar to unknown protein [Oryza sativa (japonica cultivar-group)] (GB:BAB89049.1); similar to conserved hypothetical protein [Medicago truncatula] (GB:ABE93629.1)\\
## Solyc12g008460 & AT4G15450 & senescence/dehydration-associated protein-related; similar to senescence/dehydration-associated protein-related [Arabidopsis thaliana] (TAIR:AT3G21600.1); similar to Os01g0723100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044105.1); similar to Senescence-associated [Medicago truncatula] (GB:ABE88176.1); contains InterPro domain Senescence-associated; (InterPro:IPR009686)\\
## Solyc12g008520 & NA & NA\\
## Solyc12g038360 & NA & NA\\
## \bottomrule
## \end{tabular}Cluster 35
Higher is o regions than MBR
clusterVis(35)## Using gene as id variables
clusterVis_PCA(35)
clusterVis_line(35)## Using gene, curated as id variables
#clusterGO(35)
y <- genesInClust(35, data.val2, annotation) ## [1] 53kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g277510 & ATCG00020 & Encodes chlorophyll binding protein D1, a part of the photosystem II reaction center core\\
## Solyc01g007730 & NA & NA\\
## Solyc01g080400 & AT3G06270 & protein phosphatase 2C, putative / PP2C, putative; similar to protein phosphatase 2C, putative / PP2C, putative [Arabidopsis thaliana] (TAIR:AT2G20050.1); similar to Os02g0281000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046559.1); similar to putative protein phosphatase 2C (PP2C) [Oryza sativa (japonica cultivar-group)] (GB:BAC16725.1); similar to Os07g0646100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060460.1); contains InterPro domain Protein phosphatase 2C; (InterPro:IPR000222); contains InterPro domain Protein phosphatase 2C-like; (InterPro:IPR001932)\\
## Solyc01g087030 & AT3G08505 & zinc finger (CCCH-type/C3HC4-type RING finger) family protein; similar to Zinc finger C-x8-C-x5-C-x3-H type (and similar), putative [Medicago truncatula] (GB:ABE90894.1); contains InterPro domain Zinc finger, CCCH-type; (InterPro:IPR000571); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc01g090790 & NA & NA\\
## \addlinespace
## Solyc01g096030 & AT3G61800 & similar to hypothetical protein DDBDRAFT_0189958 [Dictyostelium discoideum AX4] (GB:XP_646872.1); similar to Os02g0293800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046601.1); contains InterPro domain ENTH/VHS; (InterPro:IPR008942)\\
## Solyc01g096360 & AT2G46710 & rac GTPase activating protein, putative; similar to rac GTPase activating protein, putative [Arabidopsis thaliana] (TAIR:AT4G03100.1); similar to rac GTPase activating protein 2 [Lotus japonicus] (GB:AAC62625.1); contains InterPro domain PAK-box/P21-Rho-binding; (InterPro:IPR000095); contains InterPro domain Rho GTPase activation protein; (InterPro:IPR008936); contains InterPro domain Wiscott-Aldrich syndrome, C-terminal; (InterPro:IPR011026); contains InterPro domain RhoGAP; (InterPro:IPR000198)\\
## Solyc01g105450 & AT1G17840 & ABC transporter family protein; Identical to White-brown complex homolog protein 11 (WBC11) [Arabidopsis Thaliana] (GB:Q8RXN0;GB:Q9LMU4); similar to CER5 (ECERIFERUM 5), ATPase, coupled to transmembrane movement of substances [Arabidopsis thaliana] (TAIR:AT1G51500.1); similar to ABC transporter family protein [Arabidopsis thaliana] (TAIR:AT1G51460.1); similar to ABC transporter family protein [Arabidopsis thaliana] (TAIR:AT3G21090.1); similar to Os10g0494300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001064944.1); similar to ABC transporter [Gossypium hirsutum] (GB:AAP80385.1); similar to Os04g0528300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053375.1); contains InterPro domain ABC-2 type transporter; (InterPro:IPR013525); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain ABC transporter related; (InterPro:IPR003439)\\
## Solyc01g105690 & NA & NA\\
## Solyc01g106690 & NA & NA\\
## \addlinespace
## Solyc02g071000 & AT1G29930 & Subunit of light-harvesting complex II (LHCII),which absorbs light and transfers energy to the photosynthetic reaction center.\\
## Solyc02g078500 & AT4G27450 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT3G15450.1); similar to unknown [Glycine max] (GB:AAG00940.1); contains domain no description (G3D.3.60.20.10); contains domain N-terminal nucleophile aminohydrolases (Ntn hydrolases) (SSF56235)\\
## Solyc02g078750 & AT4G03230 & S-locus lectin protein kinase family protein; similar to S-locus lectin protein kinase family protein [Arabidopsis thaliana] (TAIR:AT1G11330.1); similar to ARK3 (Arabidopsis Receptor Kinase 3), kinase [Arabidopsis thaliana] (TAIR:AT4G21380.1); similar to receptor protein kinase [Ipomoea trifida] (GB:AAC23542.1); contains InterPro domain Apple-like; (InterPro:IPR003609); contains InterPro domain S-locus glycoprotein; (InterPro:IPR000858); contains InterPro domain Curculin-like (mannose-binding) lectin; (InterPro:IPR001480); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain PAN-like, type 2; (InterPro:IPR013227); contains InterPro domain EGF-like, type 3; (InterPro:IPR000742); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Tyrosine protein kinase; (InterPro:IPR001245); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc02g080640 & AT4G21990 & Encodes a protein disulfide isomerase-like (PDIL) protein, a member of a multigene family within the thioredoxin (TRX) superfamily. This protein also belongs to the adenosine 5'-phosphosulfate reductase-like (APRL) group.\\
## Solyc02g081190 & AT1G05010 & Encodes 1-aminocyclopropane-1-carboxylate oxidase\\
## \addlinespace
## Solyc02g082270 & AT1G76460 & RNA recognition motif (RRM)-containing protein; similar to RNA recognition motif (RRM)-containing protein [Arabidopsis thaliana] (TAIR:AT1G20880.1); similar to RNA-binding re (GB:ABE82599.1); contains InterPro domain Nucleotide-binding, alpha-beta plait; (InterPro:IPR012677); contains InterPro domain RNA-binding region RNP-1 (RNA recognition motif); (InterPro:IPR000504)\\
## Solyc02g089880 & AT3G50760 & Encodes a protein with putative galacturonosyltransferase activity.\\
## Solyc03g083060 & NA & NA\\
## Solyc04g071900 & AT1G71695 & peroxidase 12 (PER12) (P12) (PRXR6); Identical to Peroxidase 12 precursor (EC 1.11.1.7) (Atperox P12) (PRXR6) (ATP4a) (PER12) [Arabidopsis Thaliana] (GB:Q96520;GB:Q43734); similar to peroxidase, putative [Arabidopsis thaliana] (TAIR:AT4G08770.1); similar to peroxidase [Nicotiana tabacum] (GB:AAK52084.1); contains InterPro domain Haem peroxidase; (InterPro:IPR010255); contains InterPro domain Haem peroxidase, plant/fungal/bacterial; (InterPro:IPR002016); contains InterPro domain Plant peroxidase; (InterPro:IPR000823)\\
## Solyc05g006220 & AT1G51760 & encodes a member of the six Arabidopsis IAA-amino acid conjugate hydrolase subfamily and conjugates and conjugates IAA-Ala in vitro. Gene is expressed most strongly in roots, stems, and flowers.\\
## \addlinespace
## Solyc05g010710 & NA & NA\\
## Solyc05g013570 & AT1G67900 & phototropic-responsive NPH3 family protein; similar to phototropic-responsive NPH3 family protein [Arabidopsis thaliana] (TAIR:AT3G26490.1); similar to transposon protein, putative, Mutator sub-class, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF94544.1); similar to Os04g0477000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053084.1); similar to OSIGBa0116M22.3 [Oryza sativa (indica cultivar-group)] (GB:CAH66936.1); contains InterPro domain NPH3; (InterPro:IPR004249)\\
## Solyc05g041230 & ATCG00280 & chloroplast gene encoding a CP43 subunit of the photosystem II reaction center. promoter contains a blue-light responsive element.\\
## Solyc06g065440 & AT1G34370 & Encodes a putative nuclear Cys(2)His(2)-type zinc finger protein involved in H+ and Al3+ rhizotoxicity. In mutants exposed to aluminum stress, there is no induction of AtALMT1, an malate transporter known to be involved in the mediation of aluminum toxicity.\\
## Solyc06g071820 & AT3G48360 & encodes a protein (BT2) that is an essential component of the TAC1-mediated telomerase activation pathway\\
## \addlinespace
## Solyc07g005770 & NA & NA\\
## Solyc07g006410 & NA & NA\\
## Solyc07g006730 & AT5G52450 & MATE efflux protein-related; similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT2G34360.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G73700.1); similar to Os04g0373400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001052573.1); similar to MATE efflux family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABG65963.1); similar to Os06g0494400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057687.1); contains InterPro domain Virulence factor MVIN-like; (InterPro:IPR004268); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## Solyc07g054740 & AT4G21450 & vesicle-associated membrane family protein / VAMP family protein; similar to vesicle-associated membrane family protein / VAMP family protein [Arabidopsis thaliana] (TAIR:AT4G05060.1); similar to Major sperm protein [Medicago truncatula] (GB:ABD32337.1); contains InterPro domain PapD-like; (InterPro:IPR008962); contains InterPro domain Major sperm protein; (InterPro:IPR000535)\\
## Solyc07g064670 & AT1G05170 & galactosyltransferase family protein; similar to galactosyltransferase family protein [Arabidopsis thaliana] (TAIR:AT2G32430.1); similar to Os03g0577500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001050543.1); similar to putative Avr9 elicitor response protein [Oryza sativa (japonica cultivar-group)] (GB:BAD25162.1); contains InterPro domain Glycosyl transferase, family 31; (InterPro:IPR002659)\\
## \addlinespace
## Solyc08g048290 & AT1G30220 & ATINT2 (INOSITOL TRANSPORTER 2); carbohydrate transporter/ sugar porter; Identical to Probable inositol transporter 2 (INT2) [Arabidopsis Thaliana] (GB:Q9C757); similar to ATINT3 (INOSITOL TRANSPORTER 3), carbohydrate transporter/ sugar porter [Arabidopsis thaliana] (TAIR:AT2G35740.1); similar to ATINT4 (INOSITOL TRANSPORTER 4), carbohydrate transporter/ myo-inositol:hydrogen symporter/ sugar porter [Arabidopsis thaliana] (TAIR:AT4G16480.1); similar to Sugar transporter superfamily; Major facilitator superfamily MFS_1 [Medicago truncatula] (GB:ABD32437.1); similar to putative Na+/myo-inositol symporter [Mesembryanthemum crystallinum] (GB:AAF91432.1); similar to putative Na+/myo-inositol symporter [Mesembryanthemum crystallinum] (GB:AAF91431.1); contains InterPro domain Sugar transporter; (InterPro:IPR003663); contains InterPro domain Sugar transporter superfamily; (InterPro:IPR005829); contains InterPro domain Major facilitator superfamily; (InterPro:IPR007114); contains InterPro domain General substrate transporter; (InterPro:IPR005828)\\
## Solyc08g066500 & AT1G52150 & Member of the class III HD-ZIP protein family. Contains homeodomain and leucine zipper domain. Critical for vascular development and negatively regulates vascular cell differentiation.\\
## Solyc08g067330 & AT1G29920 & Encodes lhcb1.1 a component of the LHCIIb light harvesting complex associated with photosystem II.\\
## Solyc08g076290 & AT1G32080 & membrane protein, putative; similar to Os10g0578800 [Oryza sativa (japonica cultivar-group)] (GB:NP_001065502.1); similar to LrgB-like family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABB48034.1); contains InterPro domain Duffy antigen/chemokine receptor; (InterPro:IPR005384); contains InterPro domain LrgB-like protein; (InterPro:IPR007300)\\
## Solyc08g081030 & AT4G11570 & haloacid dehalogenase-like hydrolase family protein; similar to haloacid dehalogenase-like hydrolase family protein [Arabidopsis thaliana] (TAIR:AT3G10970.1); similar to Histidine acid phosphatase; HAD-superfamily hydrolase subfamily IA, variant 3 [Medicago truncatula] (GB:ABE92120.1); contains InterPro domain Haloacid dehalogenase-like hydrolase; (InterPro:IPR005834)\\
## \addlinespace
## Solyc08g082900 & NA & NA\\
## Solyc09g007730 & AT1G16670 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT3G09010.1); similar to Os04g0619400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053898.1); similar to H0313F03.21 [Oryza sativa (indica cultivar-group)] (GB:CAJ86134.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## Solyc09g008670 & AT3G10050 & first enzyme in the biosynthetic pathway of isoleucine\\
## Solyc09g009670 & NA & NA\\
## Solyc09g011140 & AT5G06060 & tropinone reductase, putative / tropine dehydrogenase, putative; similar to tropinone reductase, putative / tropine dehydrogenase, putative [Arabidopsis thaliana] (TAIR:AT2G29290.1); similar to Tropinone reductase, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF95188.1); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## \addlinespace
## Solyc09g015320 & NA & NA\\
## Solyc09g025270 & NA & NA\\
## Solyc09g072650 & AT4G28600 & encodes a calmodulin-binding protein that is expressed in pollen, suspension culture cells, flowers, and fruits.\\
## Solyc09g075140 & AT3G62860 & esterase/lipase/thioesterase family protein; similar to esterase/lipase/thioesterase family protein [Arabidopsis thaliana] (TAIR:AT2G47630.1); similar to Os05g0363100 [Oryza sativa (japonica cultivar-group)] (GB:NP_001055317.1); similar to Alpha/beta hydrolase [Medicago truncatula] (GB:ABE84979.1); contains InterPro domain Esterase/lipase/thioesterase; (InterPro:IPR000379); contains InterPro domain Alpha/beta hydrolase; (InterPro:IPR003089)\\
## Solyc10g005880 & AT1G55810 & uracil phosphoribosyltransferase, putative / UMP pyrophosphorylase, putative / UPRTase, putative; similar to ATUK/UPRT1, ATP binding / kinase/ uracil phosphoribosyltransferase/ uridine kinase [Arabidopsis thaliana] (TAIR:AT5G40870.1); similar to uracil phosphoribosyltransferase, putative / UMP pyrophosphorylase, putative / UPRTase, putative [Arabidopsis thaliana] (TAIR:AT3G27190.1); similar to uracil phosphoribosyltransferase / UMP pyrophosphorylase (UPT1) [Arabidopsis thaliana] (TAIR:AT4G26510.2); similar to Phosphoribosyltransferase; AAA ATPase; Phosphoribulokinase/uridine kinase [Medicago truncatula] (GB:ABE83101.1); similar to Os02g0273000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001046530.1); similar to Os11g0265000 [Oryza sativa (japonica cultivar-group)] (GB:NP_001067657.1); contains InterPro domain Phosphoribulokinase/uridine kinase; (InterPro:IPR006083); contains InterPro domain Uridine kinase; (InterPro:IPR000764); contains InterPro domain Phosphoribosyltransferase; (InterPro:IPR000836)\\
## \addlinespace
## Solyc10g055260 & AT2G21050 & amino acid permease, putative; Identical to Auxin transporter-like protein 2 (AUX1-like protein 2) (LAX2) [Arabidopsis Thaliana] (GB:Q9S836); similar to amino acid permease, putative [Arabidopsis thaliana] (TAIR:AT5G01240.1); similar to AUX1 (AUXIN RESISTANT 1), amino acid permease/ transporter [Arabidopsis thaliana] (TAIR:AT2G38120.1); similar to amino acid permease, putative [Arabidopsis thaliana] (TAIR:AT1G77690.1); similar to Auxin transporter-like protein 5 (AUX1-like protein 5) (MtLAX5) (GB:Q8L883); similar to putative AUX1-like permease [Populus tremula x Populus tremuloides] (GB:AAK58522.1); similar to Auxin transporter-like protein 3 (AUX1-like protein 3) (MtLAX3) (GB:Q9FEL6); contains InterPro domain RuvA-like, C-terminal; (InterPro:IPR011132); contains InterPro domain Amino acid/polyamine transporter II; (InterPro:IPR002422); contains InterPro domain Amino acid transporter, transmembrane; (InterPro:IPR013057)\\
## Solyc11g010760 & NA & NA\\
## Solyc11g044240 & NA & NA\\
## Solyc12g008640 & AT4G29210 & The gene encodes a gamma-glutamyltransferase (AKA gamma-glutamyl transpeptidase, EC 2.3.2.2) that is located in the vacuole and is most active in roots. The encoded enzyme is involved in the initial degradation of glutathione conjugates in this cell compartment. It is also induced by xenobiotics and contributes to xenobiotics metabolism.\\
## Solyc12g008800 & AT5G56840 & DNA-binding family protein; similar to myb family transcription factor [Arabidopsis thaliana] (TAIR:AT3G16350.1); similar to Zinc finger, CCHC-type; Homeodomain-related [Medicago truncatula] (GB:ABE79223.1); contains InterPro domain Homeodomain-related; (InterPro:IPR012287); contains InterPro domain Homeodomain-like; (InterPro:IPR009057); contains InterPro domain Myb-like DNA-binding region, SHAQKYF class; (InterPro:IPR006447); contains InterPro domain Myb, DNA-binding; (InterPro:IPR001005); contains InterPro domain Zinc finger, CCHC-type; (InterPro:IPR001878)\\
## \addlinespace
## Solyc12g096770 & NA & NA\\
## Solyc12g098100 & AT5G63930 & leucine-rich repeat transmembrane protein kinase, putative; similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT2G33170.1); similar to leucine-rich repeat transmembrane protein kinase, putative [Arabidopsis thaliana] (TAIR:AT1G34110.1); similar to leucine-rich repeat family protein / protein kinase family protein [Arabidopsis thaliana] (TAIR:AT1G17230.1); similar to Leucine Rich Repeat family protein [Solanum demissum] (GB:AAT40539.2); similar to Receptor-like protein kinase precursor (GB:P93194); similar to putative LRR receptor-like kinase [Oryza sativa (japonica cultivar-group)] (GB:BAC84715.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Leucine-rich repeat, plant specific; (InterPro:IPR007090); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271); contains InterPro domain Leucine rich repeat, N-terminal; (InterPro:IPR013210)\\
## Solyc12g099930 & AT2G13360 & Encodes a peroxisomal photorespiratory enzyme that catalyzes transamination reactions with multiple substrates. It is involved in photorespiration.\\
## \bottomrule
## \end{tabular}Cluster 36
Solyc08g066500 & AT1G52150 & Member of the class III HD-ZIP protein family. Contains homeodomain and leucine zipper domain. Critical for vascular development and negatively regulates vascular cell differentiation.
clusterVis(36)## Using gene as id variables
clusterVis_PCA(36)
clusterVis_line(36)## Using gene, curated as id variables
#clusterGO(36)
y <- genesInClust(36, data.val2, annotation) ## [1] 53kable(y, format = "latex", booktabs = TRUE)##
## \begin{tabular}{lll}
## \toprule
## ITAG & AGI & gene_name\\
## \midrule
## Solyc00g007300 & NA & NA\\
## Solyc01g008520 & NA & NA\\
## Solyc01g086850 & AT5G47960 & Encodes a small molecular weight g-protein.\\
## Solyc01g095130 & NA & NA\\
## Solyc01g106590 & AT2G14530 & similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G64470.2); similar to Os07g0498900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001059712.1); similar to Os02g0117900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001045691.1); similar to Protein of unknown function DUF231, plant [Medicago truncatula] (GB:ABE84785.1); contains InterPro domain Protein of unknown function DUF231, plant; (InterPro:IPR004253)\\
## \addlinespace
## Solyc01g108000 & AT1G49730 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT3G19300.1); similar to H0814G11.12 [Oryza sativa (indica cultivar-group)] (GB:CAJ86345.1); similar to Os04g0689400 [Oryza sativa (japonica cultivar-group)] (GB:NP_001054345.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719)\\
## Solyc01g108490 & AT2G35780 & SCPL26 (serine carboxypeptidase-like 26); serine carboxypeptidase; similar to SCPL27 (serine carboxypeptidase-like 27), serine carboxypeptidase [Arabidopsis thaliana] (TAIR:AT3G07990.1); similar to unnamed protein product [Oryza sativa (japonica cultivar-group)] (GB:BAB08188.1); similar to Os01g0158200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042076.1); similar to Os01g0833500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001044713.1); contains InterPro domain Peptidase S10, serine carboxypeptidase; (InterPro:IPR001563)\\
## Solyc01g110720 & AT2G21210 & Putative auxin-regulated protein whose expression is downregulated in response to chitin oligomers.\\
## Solyc02g036320 & ATCG00340 & Encodes the D1 subunit of photosystem I and II reaction centers.\\
## Solyc02g063330 & AT5G37790 & protein kinase family protein; similar to protein kinase family protein [Arabidopsis thaliana] (TAIR:AT1G66460.1); similar to Protein kinase domain containing protein [Oryza sativa (japonica cultivar-group)] (GB:ABA95941.1); contains InterPro domain Protein kinase-like; (InterPro:IPR011009); contains InterPro domain Protein kinase; (InterPro:IPR000719); contains InterPro domain Serine/threonine protein kinase, active site; (InterPro:IPR008271)\\
## \addlinespace
## Solyc02g068540 & NA & NA\\
## Solyc02g071080 & NA & NA\\
## Solyc02g091740 & NA & NA\\
## Solyc03g007970 & NA & NA\\
## Solyc03g082880 & NA & NA\\
## \addlinespace
## Solyc03g095880 & NA & NA\\
## Solyc03g120250 & AT3G15990 & Encodes sulfate transporter Sultr3;4.\\
## Solyc03g121940 & NA & NA\\
## Solyc04g076900 & AT1G27590 & similar to phosphatidylinositol 3- and 4-kinase family protein [Arabidopsis thaliana] (TAIR:AT1G27570.1); similar to Os07g0693900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001060734.1); similar to PREDICTED: similar to Symplekin isoform 1 [Bos taurus] (GB:XP_585791.2); similar to PREDICTED: similar to Symplekin [Canis familiaris] (GB:XP_533638.2); contains domain ARM repeat (SSF48371); contains domain SUBFAMILY NOT NAMED (PTHR15245:SF12); contains domain FAMILY NOT NAMED (PTHR15245)\\
## Solyc04g079420 & AT4G33300 & ADR1-L1 (ADR1-LIKE 1); ATP binding / protein binding; Identical to Probable disease resistance protein At4g33300 [Arabidopsis Thaliana] (GB:Q9SZA7;GB:Q56WJ3); similar to ADR1-L2 (ADR1-LIKE 2), ATP binding / nucleoside-triphosphatase/ nucleotide binding / protein binding [Arabidopsis thaliana] (TAIR:AT5G04720.1); similar to ADR1 (ACTIVATED DISEASE RESISTANCE 1) [Arabidopsis thaliana] (TAIR:AT1G33560.1); similar to ADR1-L3 (ADR1-LIKE 3), ATP binding / protein binding [Arabidopsis thaliana] (TAIR:AT5G47280.1); similar to Probable disease resistance protein At4g33300 (GB:Q9SZA7); similar to Disease resistance protein; AAA ATPase [Medicago truncatula] (GB:ABE81238.1); similar to Leucine Rich Repeat family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA99732.1); contains InterPro domain NB-ARC; (InterPro:IPR002182); contains InterPro domain Disease resistance protein; (InterPro:IPR000767); contains InterPro domain Leucine-rich repeat; (InterPro:IPR001611); contains InterPro domain Protein kinase PKN/PRK1, effector; (InterPro:IPR011072)\\
## \addlinespace
## Solyc05g009340 & NA & NA\\
## Solyc05g013450 & AT1G12950 & MATE efflux family protein; similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT3G26590.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT5G38030.1); similar to MATE efflux family protein [Arabidopsis thaliana] (TAIR:AT1G23300.1); similar to integral membrane protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD87151.1); similar to Os08g0550200 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062445.1); similar to putative anthocyanin permease [Lycopersicon esculentum] (GB:AAQ55183.1); contains InterPro domain Multi antimicrobial extrusion protein MatE; (InterPro:IPR002528)\\
## Solyc05g054590 & AT2G28760 & UXS6; catalytic; similar to UXS5 (UDP-Xyl synthase 5), catalytic [Arabidopsis thaliana] (TAIR:AT3G46440.2); similar to UXS3 (UDP-GLUCURONIC ACID DECARBOXYLASE) [Arabidopsis thaliana] (TAIR:AT5G59290.2); similar to UDP-glucuronic acid decarboxylase 3 [Populus tomentosa] (GB:AAX37336.1); similar to putative UDP-glucuronate decarboxylase 2 [Nicotiana tabacum] (GB:AAT40108.1); similar to dTDP-glucose 4-6-dehydratase [Cicer arietinum] (GB:CAB61752.1); contains InterPro domain NAD-dependent epimerase/dehydratase; (InterPro:IPR001509)\\
## Solyc06g005850 & NA & NA\\
## Solyc06g032740 & NA & NA\\
## \addlinespace
## Solyc06g071150 & AT1G74790 & Identical to HIPL1 protein precursor (HIPL1) [Arabidopsis Thaliana] (GB:Q9SSG3); similar to HIPL2 (HIPL2 PROTEIN PRECURSOR) [Arabidopsis thaliana] (TAIR:AT5G62630.1); similar to unknown protein [Arabidopsis thaliana] (TAIR:AT5G39970.1); similar to hypothetical protien [Hordeum vulgare subsp. vulgare] (GB:AAV49993.1); similar to glucose/sorbosone dehydrogenases-like protein [Oryza sativa (japonica cultivar-group)] (GB:BAD30151.1); similar to unnamed protein product [Triticum tur (GB:CAJ13560.1); contains InterPro domain Soluble quinoprotein glucose dehydrogenase; (InterPro:IPR011041)\\
## Solyc06g082990 & AT3G25440 & similar to group II intron splicing factor CRS1-related [Arabidopsis thaliana] (TAIR:AT4G13070.1); similar to Os04g0492900 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053180.1); similar to Os06g0304500 [Oryza sativa (japonica cultivar-group)] (GB:NP_001057465.1); similar to CFM6 [Zea mays] (GB:ABD63903.1); contains InterPro domain CRS1/YhbY; (InterPro:IPR001890)\\
## Solyc06g083200 & AT3G25210 & pentatricopeptide (PPR) repeat-containing protein; similar to binding [Arabidopsis thaliana] (TAIR:AT2G27800.1); similar to pentatricopeptide (PPR) repeat-containing protein-like [Oryza sativa (japonica cultivar-group)] (GB:BAD72524.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885)\\
## Solyc07g052930 & NA & NA\\
## Solyc07g054410 & NA & NA\\
## \addlinespace
## Solyc07g055750 & AT3G57030 & strictosidine synthase family protein; similar to strictosidine synthase family protein [Arabidopsis thaliana] (TAIR:AT5G22020.1); similar to putative strictosidine synthase [Lycopersicon esculentum] (GB:AAF75751.1); contains InterPro domain Strictosidine synthase; (InterPro:IPR004141)\\
## Solyc08g008410 & AT4G24020 & RWP-RK domain-containing protein; similar to RWP-RK domain-containing protein [Arabidopsis thaliana] (TAIR:AT1G64530.1); similar to Os01g0236700 [Oryza sativa (japonica cultivar-group)] (GB:NP_001042530.1); similar to OSIGBa0159F11.11 [Oryza sativa (indica cultivar-group)] (GB:CAH67387.1); similar to RWP-RK domain containing protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABA92484.2); contains InterPro domain Plant regulator RWP-RK; (InterPro:IPR003035); contains InterPro domain Octicosapeptide/Phox/Bem1p; (InterPro:IPR000270)\\
## Solyc08g022170 & ATCG01110 & Encodes the 49KDa plastid NAD(P)H dehydrogenase subunit H protein. Its transcription is regulated by an ndhF-specific plastid sigma factor, SIG4.\\
## Solyc08g065150 & NA & NA\\
## Solyc09g010150 & AT5G04070 & short-chain dehydrogenase/reductase (SDR) family protein; similar to short-chain dehydrogenase/reductase (SDR) family protein [Arabidopsis thaliana] (TAIR:AT5G15940.1); similar to ALTE [Homo sapiens] (GB:AAQ89208.1); similar to Os09g0346600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001062940.1); similar to DHRSX protein [Homo sapiens] (GB:AAH19696.2); contains InterPro domain Short-chain dehydrogenase/reductase SDR; (InterPro:IPR002198); contains InterPro domain Glucose/ribitol dehydrogenase; (InterPro:IPR002347)\\
## \addlinespace
## Solyc09g031810 & ATCG01280 & Identical to Protein ycf2 (ycf2-B) [Arabidopsis Thaliana] (GB:P56786); similar to hypothetical chloroplast RF2 [Vitis vinifera] (GB:YP_567121.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41290.1); similar to hypothetical chloroplast RF2 [Gossypium hirsutum] (GB:YP_538978.1); contains InterPro domain Chloroplast Ycf2; (InterPro:IPR008543); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc09g059170 & NA & NA\\
## Solyc09g065920 & AT5G64560 & magnesium transporter CorA-like family protein (MRS2-2); similar to magnesium transporter CorA-like family protein (MRS2-7) [Arabidopsis thaliana] (TAIR:AT5G09690.2); similar to magnesium transporter CorA-like family protein, putative, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF98804.1); contains InterPro domain Mg2+ transporter protein, CorA-like; (InterPro:IPR002523)\\
## Solyc09g065990 & AT2G30580 & zinc finger (C3HC4-type RING finger) family protein; similar to zinc finger (C3HC4-type RING finger) family protein [Arabidopsis thaliana] (TAIR:AT1G06770.1); similar to Zinc finger, C3HC4 type family protein, expressed [Oryza sativa (japonica cultivar-group)] (GB:ABF97766.1); contains InterPro domain Zinc finger, RING-type; (InterPro:IPR001841)\\
## Solyc09g084480 & NA & NA\\
## \addlinespace
## Solyc09g091660 & AT1G15520 & ABC transporter family involved in resistant to lead. Localizes to plasma membrane. Upregulated by lead. Expressed in leaves, flowers. Not expressed in roots.\\
## Solyc10g012230 & ATCG01280 & Identical to Protein ycf2 (ycf2-B) [Arabidopsis Thaliana] (GB:P56786); similar to hypothetical chloroplast RF2 [Vitis vinifera] (GB:YP_567121.1); similar to Hypothetical protein [Gossypium barbadense] (GB:BAF41290.1); similar to hypothetical chloroplast RF2 [Gossypium hirsutum] (GB:YP_538978.1); contains InterPro domain Chloroplast Ycf2; (InterPro:IPR008543); contains InterPro domain AAA ATPase; (InterPro:IPR003593); contains InterPro domain AAA ATPase, central region; (InterPro:IPR003959)\\
## Solyc10g083440 & NA & NA\\
## Solyc11g013130 & NA & NA\\
## Solyc11g017370 & AT3G22150 & pentatricopeptide (PPR) repeat-containing protein; similar to pentatricopeptide (PPR) repeat-containing protein [Arabidopsis thaliana] (TAIR:AT3G57430.1); similar to B0403H10-OSIGBa0105A11.20 [Oryza sativa (indica cultivar-group)] (GB:CAH67868.1); similar to Os04g0602600 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053774.1); contains InterPro domain Pentatricopeptide repeat; (InterPro:IPR002885); contains InterPro domain Protein prenyltransferase; (InterPro:IPR008940); contains InterPro domain Tetratricopeptide-like helical; (InterPro:IPR011990)\\
## \addlinespace
## Solyc12g006370 & AT2G43020 & ATPAO2 (POLYAMINE OXIDASE 2); amine oxidase; similar to ATPAO3 (POLYAMINE OXIDASE 3), oxidoreductase [Arabidopsis thaliana] (TAIR:AT3G59050.1); similar to amine oxidase family protein [Musa acuminata] (GB:ABF69974.1); similar to H0215F08.3 [Oryza sativa (indica cultivar-group)] (GB:CAH66792.1); similar to Os04g0623300 [Oryza sativa (japonica cultivar-group)] (GB:NP_001053923.1); contains InterPro domain Flavin-containing amine oxidase; (InterPro:IPR001613); contains InterPro domain Amine oxidase; (InterPro:IPR002937)\\
## Solyc12g009570 & AT5G35410 & encodes a member of the CBL-interacting protein kinase family, is a regulatory component controlling plant potassium nutrition\\
## Solyc12g010290 & NA & NA\\
## Solyc12g013850 & AT4G27480 & glycosyltransferase family 14 protein / core-2/I-branching enzyme family protein; similar to glycosyltransferase family 14 protein / core-2/I-branching enzyme family protein [Arabidopsis thaliana] (TAIR:AT3G15350.2); similar to glycosyl transferase family 14 protein [Musa balbisiana] (GB:ABF70128.1); contains InterPro domain Transglutaminase, C-terminal; (InterPro:IPR008958); contains InterPro domain Glycosyl transferase, family 14; (InterPro:IPR003406)\\
## Solyc12g017430 & NA & NA\\
## \addlinespace
## Solyc12g077670 & AT1G18800 & Double nrp1-1 nrp2-1 mutants show arrest of cell cycle progression at G2/M and disordered cellular organization occurred in root tips. Localize in the nucleus and can form homomeric and heteromeric protein complexes with NRP1. Bind histones Histone2A and Histone2B and associate with chromatin in vivo.\\
## Solyc12g095900 & NA & NA\\
## Solyc12g096780 & AT3G45770 & oxidoreductase, zinc-binding dehydrogenase family protein; Identical to Probable trans-2-enoyl-CoA reductase, mitochondrial precursor (EC 1.3.1.38) [Arabidopsis Thaliana] (GB:Q8LCU7;GB:Q8W4H6;GB:Q9M166); similar to ARP protein (REF) [Arabidopsis thaliana] (TAIR:AT1G49670.1); similar to Alcohol dehydrogenase superfamily, zinc-containing [Medicago truncatula] (GB:ABE81735.1); contains InterPro domain GroES-like; (InterPro:IPR011032); contains InterPro domain Alcohol dehydrogenase superfamily, zinc-containing; (InterPro:IPR002085); contains InterPro domain Alcohol dehydrogenase, zinc-binding; (InterPro:IPR013149); contains InterPro domain Alcohol dehydrogenase GroES-like; (InterPro:IPR013154)\\
## \bottomrule
## \end{tabular}Conclusions
What if this data analysis yields two parts
DE analysis: The analysis of WT, where the furthest we get is GO categories. This will also aid in the the three clusters.
I can then look at the individual clusters and see how they are related to each other in the trifoliate data. To get a better idea about how related these genes are, you could try doing a chord map. Are there genes that are described in both data sets, yet trifoilate different.
The key question is, what do my hypotheses look like if represented in my data?
Q1: What are the genes that are differentiatially expressed between the marginal blastozone and the rachis regions
Q2: Is there a differentiation of tissue from high to low along the longitudinal axis?
Q3: How does trifoilate differ? Are there clusters that are the same in all respects, with small exceptions? What are those genes?
Now that I know my data here are the genes. Can I do a t-test between the areas I am interested in? Is that allowed? Especially after scaling the data? Can I put back in the standard deviation? Is that possible, or is all I am left with is sd of the number of genes?
I need to write something that looks at the statistical difference in tissue between each genotype. In order to do that I have to subset based on tissue and do a t-test? Do I need to correct for multiple testing? Ideally what information do I want from these clusters?
I want clusters that are enriched in leaf genes. Maybe I could just color special for leaf genes?
Significant differences between genotype at each tissue.
How much intersect is there between my genes and the curated gene list?
length(intersect(data.val2$gene, genesOfInterest$gene) ) #77## [1] 77Only 51? Is that right? Double check. Are there only 51 leaf curated genes differentially expressed? Maybe I need to be looking at a larger subset. 25% co-efficient of variation. In lcmSOM_analysis4_072914.Rmd, I looked into this a bit more.
#From lcmSOM_analysis4_072914.Rmd
intersect(genesOfInterest$gene, countData$X) #There are only 217 leaf curated genes in the normalized read counts.
intersect(genesOfInterest$gene, data.val.allGenes25$gene) # There are only 77 which are in the top 25%
#There are 51 which overlap with the DE genes. I have to make a decision between